Origin IGS: acatttcagctaatcaccaaaaaatgtgattaagatcacttgtgcatacaatataattctaagtagttatattttaatttttaaactttaggagaaaacatt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aatgttttctcctaaagtttaaaaattaaaatataactacttagaattatattgtatgcacaagtgatcttaatcacattttttggtgattagctgaaatgt Mask Tandem Repeat Region ================================================ acatttcagctaatcaccaaaaaatgtgattaagatcacttgtgcatacaatataattctaagtagttatattttaatttttaaactttaggagaaaacatt Find is-nt database================================================ Query_seq: AA02783:AA02784|AA02783:AA02784:hypothetical protein:NAD+ dependent acetaldehyde-alcohol dehydrogenase, iron-containing:->->:1949139..1949240 102 acatttcagctaatcaccaaaaaatgtgattaagatcacttgtgcatacaatataattctaagtagttatattttaatttttaaactttaggagaaaacatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA02783:AA02784|AA02783:AA02784:hypothetical protein:NAD+ dependent acetaldehyde-alcohol dehydrogenase, iron-containing:->->:1949139..1949240 102 acatttcagctaatcaccaaaaaatgtgattaagatcacttgtgcatacaatataattctaagtagttatattttaatttttaaactttaggagaaaacatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA02783:AA02784|AA02783:AA02784:hypothetical protein:NAD+ dependent acetaldehyde-alcohol dehydrogenase, iron-containing:->->:1949139..1949240 102 acatttcagctaatcaccaaaaaatgtgattaagatcacttgtgcatacaatataattctaagtagttatattttaatttttaaactttaggagaaaacatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 acatttcagctaatcaccaaaaaatgtgattaagatcacttgtgcatacaatataattctaagtagttatattttaatttttaaactttaggagaaaacatt Predict ORF larger than 30AA ================================================ acatttcagctaatcaccaaaaaatgtgattaagatcacttgtgcatacaatataattctaagtagttatattttaatttttaaactttaggagaaaacatt Predict Promoter with matrix: RpoD-15 score > 80================================================ Predict Promoter with matrix: RpoD-16 score > 80================================================ Predict Promoter with matrix: RpoD-17 score > 80================================================ PromScan Matrix: RpoD-17 Strand: - Score: 81 Start: 56 End: 85 .......................................................TTTAAAAATTAAAATATAACTACTTAGAAT................. Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ acatttcagctaatcaccaaaaaatgtgattaagatcacttgtgcatacaatataattctaagtagttatattttaatttttaaactttaggagaaaacatt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA02783:AA02784|AA02783:AA02784:hypothetical protein:NAD+ dependent acetaldehyde-alcohol dehydrogenase, iron-containing:->->:1949139..1949240 102 acatttcagctaatcaccaaaaaatgtgattaagatcacttgtgcatacaatataattctaagtagttatattttaatttttaaactttaggagaaaacatt Intra-Species Hit: Count: 1 Min: 1 Max: 102 Len: 102 Subject: aact_AA02783_AA02784|hypothetical protein:NAD+ dependent acetaldehyde-alcohol dehydrogenase, iron-containing|POSITIVE:POSITIVE|[1949139,1949240]|102 HSP 1 e-value: 2.0E-51 bit: 202.0 Len: 102 Query Start:1 Query End:102 Subject Strand: POSITIVE Subject Start: 1 Subject End: 102 acatttcagctaatcaccaaaaaatgtgattaagatcacttgtgcatacaatataattctaagtagttatattttaatttttaaactttaggagaaaacatt acatttcagctaatcaccaaaaaatgtgattaagatcacttgtgcatacaatataattctaagtagttatattttaatttttaaactttaggagaaaacatt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ ACAUUUCAGCUAAUCACCAAAAAAUGUGAUUAAGAUCACUUGUGCAUACAAUAUAAUUCUAAGUAGUUAUAUUUUAAUUUUUAAACUUUAGGAGAAAACAUU ...((((..((((.....(((((..(((((....))))).......((.(((((((((......))))))))).)).))))).....))))..))))..... (-11.50) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAUGUUUUCUCCUAAAGUUUAAAAAUUAAAAUAUAACUACUUAGAAUUAUAUUGUAUGCACAAGUGAUCUUAAUCACAUUUUUUGGUGAUUAGCUGAAAUGU .....((((..((((...(((((((....(((((((((....))..)))))))..........(((((....)))))..)))))))...))))..))))... (-11.70) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 221 46 7 98 50 aact:AA01641|5end_hypothetical_protein_1110819..1111049_POSITIVE 211 47 4 91 49 aact:AA00772|5end_hypothetical_protein_531518..531748_POSITIVE 210 50 7 62 22 aact:AA00804|5end_fumarate_reductase_flavoprotein_subunit_A_549770..550000_POSITIVE 203 39 1 221 184 aact:AA00025|5end_hypothetical_protein_19235..19465_POSITIVE 187 45 12 33 5 aact:AA02870|5end_conserved_hypothetical_protein_2014123..2014353_POSITIVE 187 67 26 74 27 aact:AA00858|5end_arginine_ABC_transporter,_ATP-binding_protein_590991..591221_POSITIVE 182 49 4 225 187 aact:AA00208|5end_D-ribose_ABC_transporter,_permease_protein_/_Galactoside_transport_system_permease_protein_144097..144327_POSITIVE 177 44 7 89 50 aact:AA02504|5end_lipid_A_biosynthesis_(kdo)2-(lauroyl)-lipid_IVA_acyltransferase_1738215..1738445_POSITIVE 175 49 15 164 130 aact:AA01932|5end_tRNA_pseudouridine_synthase_B_1305098..1305328_POSITIVE 169 69 25 75 17 aact:AA02126|5end_conserved_hypothetical_protein_1450471..1450701_POSITIVE 167 45 1 178 125 aact:AA02724|5end_seryl-tRNA_ligase_1906357..1906587_POSITIVE 167 45 1 84 31 aact:AA02723|5end_hypothetical_protein_1906263..1906493_POSITIVE 167 46 7 37 3 aact:AA02399|5end_30S_ribosomal_protein_S21_1650900..1651130_POSITIVE 167 45 2 177 126 aact:AA02193|5end_oxaloacetate_decarboxylase_gamma_chain_1494219..1494449_POSITIVE 166 68 27 189 147 aact:AA00964|5end_phosphoenolpyruvate_carboxykinase/carboxylase_672675..672905_POSITIVE 165 49 6 228 176 aact:AA01138|5end_anaerobic_dimethyl_sulfoxide_reductase,_chain_B_780991..781221_POSITIVE 164 53 26 208 176 aact:AA01899|5end_conserved_hypothetical_protein_1281253..1281483_POSITIVE 164 49 4 221 177 aact:AA01615|5end_lipoprotein_releasing_system_transmembrane_1091186..1091416_POSITIVE 164 18 1 202 187 aact:AA00043|5end_formate_dependent_nitrite_reductase,_transmembrane_protein_34378..34608_POSITIVE 163 48 8 92 58 aact:AA01012|5end_probable_carbon_storage_regulator_homolog_707815..708045_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 279 50 6 151 102 aact:AA01062|3end_ribonuclease_PH_(RNase_PH)_736499..736649_POSITIVE 211 47 4 113 71 aact:AA00771|3end_hypothetical_protein_531620..531770_POSITIVE 187 67 26 50 3 aact:AA00856|3end_arginine_ABC_transporter,_periplasmic-binding_protein_591047..591197_POSITIVE 181 69 21 115 73 aact:AA01655|3end_hypothetical_protein_1121386..1121536_POSITIVE 177 44 7 64 25 aact:AA02502|3end_adenine_phosphoribosyltransferase_1738270..1738420_POSITIVE 169 46 8 36 2 aact:AA02677|3end_formate_dehydrogenase,_beta_subunit_1865105..1865255_POSITIVE 167 45 1 93 40 aact:AA02722|3end_cytidine_deaminase_1906352..1906502_POSITIVE 166 68 27 118 76 aact:AA00962|3end_exopolyphosphatase_(metaphosphatase)_672684..672834_POSITIVE 164 53 26 38 6 aact:AA01896|3end_hypothetical_protein_1281163..1281313_POSITIVE 163 44 6 54 22 aact:AA01902|3end_conserved_hypothetical_protein_1283616..1283766_POSITIVE 162 46 12 65 25 aact:AA00398|3end_protein-tyrosine-phosphatase_(PTPase)_268018..268168_POSITIVE 161 46 7 73 33 aact:AA02545|3end_conserved_hypothetical_protein_1774221..1774371_POSITIVE 160 50 15 33 1 aact:AA02328|3end_anti-sigma_factor_B_antagonist_1589736..1589886_POSITIVE 159 51 17 73 36 aact:AA01480|3end_ATP_synthase_F1,_epsilon_996320..996470_POSITIVE 158 50 6 53 1 aact:AA01805|3end_electron_transport_complex_protein_1216773..1216923_POSITIVE 158 30 3 148 122 aact:AA01051|3end_iron_(III)_ABC_transporter,_ATP-binding_protein_733172..733322_POSITIVE 157 45 8 128 91 aact:AA00557|3end_nitrate/nitrite_sensor_protein_382188..382338_POSITIVE 157 41 2 68 33 aact:AA00359|3end_50S_ribosomal_protein_L29_244500..244650_POSITIVE 156 98 63 89 53 aact:AA02830|3end_colicin_tolerance_protein_1990086..1990236_POSITIVE 154 49 3 117 72 aact:AA01567|3end_conserved_hypothetical_protein_(possible_cell-wall-associated_hydrolase)_1055215..1055365_POSITIVE