Origin IGS: tttaaaaagattttcttattaggcaagtaaaaatgtgatggaggtggcattttttagctttacttcagcaagtgaaaaatcaacttgttataatcttttcagctaatt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aattagctgaaaagattataacaagttgatttttcacttgctgaagtaaagctaaaaaatgccacctccatcacatttttacttgcctaataagaaaatctttttaaa Mask Tandem Repeat Region ================================================ tttaaaaagattttcttattaggcaagtaaaaatgtgatggaggtggcattttttagctttacttcagcaagtgaaaaatcaacttgttataatcttttcagctaatt Find is-nt database================================================ Query_seq: AA00591:AA00592|AA00591:AA00592:ABC transporter, ATP-binding protein:conserved hypothetical protein (membrane/transport protein):->->:405568..405675 108 tttaaaaagattttcttattaggcaagtaaaaatgtgatggaggtggcattttttagctttacttcagcaagtgaaaaatcaacttgttataatcttttcagctaatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA00591:AA00592|AA00591:AA00592:ABC transporter, ATP-binding protein:conserved hypothetical protein (membrane/transport protein):->->:405568..405675 108 tttaaaaagattttcttattaggcaagtaaaaatgtgatggaggtggcattttttagctttacttcagcaagtgaaaaatcaacttgttataatcttttcagctaatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA00591:AA00592|AA00591:AA00592:ABC transporter, ATP-binding protein:conserved hypothetical protein (membrane/transport protein):->->:405568..405675 108 tttaaaaagattttcttattaggcaagtaaaaatgtgatggaggtggcattttttagctttacttcagcaagtgaaaaatcaacttgttataatcttttcagctaatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tttaaaaagattttcttattaggcaagtaaaaatgtgatggaggtggcattttttagctttacttcagcaagtgaaaaatcaacttgttataatcttttcagctaatt Predict ORF larger than 30AA ================================================ tttaaaaagattttcttattaggcaagtaaaaatgtgatggaggtggcattttttagctttacttcagcaagtgaaaaatcaacttgttataatcttttcagctaatt 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================================================ tttaaaaagattttcttattaggcaagtaaaaatgtgatggaggtggcattttttagctttacttcagcaagtgaaaaatcaacttgttataatcttttcagctaatt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA00591:AA00592|AA00591:AA00592:ABC transporter, ATP-binding protein:conserved hypothetical protein (membrane/transport protein):->->:405568..405675 108 tttaaaaagattttcttattaggcaagtaaaaatgtgatggaggtggcattttttagctttacttcagcaagtgaaaaatcaacttgttataatcttttcagctaatt Intra-Species Hit: Count: 1 Min: 1 Max: 108 Len: 108 Subject: aact_AA00591_AA00592|ABC transporter, ATP-binding protein:conserved hypothetical protein (membrane/transport protein)|POSITIVE:POSITIVE|[405568,405675]|108 HSP 1 e-value: 4.0E-55 bit: 214.0 Len: 108 Query Start:1 Query End:108 Subject Strand: POSITIVE Subject Start: 1 Subject End: 108 tttaaaaagattttcttattaggcaagtaaaaatgtgatggaggtggcattttttagctttacttcagcaagtgaaaaatcaacttgttataatcttttcagctaatt tttaaaaagattttcttattaggcaagtaaaaatgtgatggaggtggcattttttagctttacttcagcaagtgaaaaatcaacttgttataatcttttcagctaatt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUAAAAAGAUUUUCUUAUUAGGCAAGUAAAAAUGUGAUGGAGGUGGCAUUUUUUAGCUUUACUUCAGCAAGUGAAAAAUCAACUUGUUAUAAUCUUUUCAGCUAAUU ....((((((((........((((....((((((((.((....)).))))))))..))))......(((((((((....)).)))))))..))))))))......... (-19.30) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAUUAGCUGAAAAGAUUAUAACAAGUUGAUUUUUCACUUGCUGAAGUAAAGCUAAAAAAUGCCACCUCCAUCACAUUUUUACUUGCCUAAUAAGAAAAUCUUUUUAAA .......((((((((((....(((((.((....)))))))...(((((((((........))...............)))))))............)))))))))).. (-15.06) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 284 68 23 149 103 aact:AA00165|5end_conserved_hypothetical_protein_117358..117588_POSITIVE 277 74 31 58 11 aact:AA01151|5end_porphobilinogen_synthase_(delta-aminolevulinic_acid_dehydratase)_788323..788553_POSITIVE 270 77 35 116 77 aact:AA02352|5end_glycine_betaine/carnitine/choline_ABC_transporter_1609568..1609798_POSITIVE 254 75 34 74 25 aact:AA01018|5end_conserved_hypothetical_protein_(possible_transcriptional_regulator)_711663..711893_POSITIVE 251 79 34 139 90 aact:AA01159|5end_phosphatase_792828..793058_POSITIVE 246 65 22 91 42 aact:AA02790|5end_NAD-dependent_aldehyde_dehydrogenase_1957871..1958101_POSITIVE 245 75 33 223 179 aact:AA00551|5end_hypothetical_protein_377225..377455_POSITIVE 244 49 9 133 92 aact:AA01006|5end_conserved_hypothetical_protein_(possible_cytosine_deaminas)_702380..702610_POSITIVE 241 75 31 148 111 aact:AA01499|5end_fructose_1,6-bisphosphatase_protein_1008357..1008587_POSITIVE 233 62 23 220 180 aact:AA01220|5end_competence_protein_F;_amidophosphoribosyltransferase_832775..833005_POSITIVE 233 62 23 101 61 aact:AA01217|5end_hypothetical_protein_832656..832886_POSITIVE 232 66 22 158 116 aact:AA00849|5end_MraZ_cell_division_protein_586038..586268_POSITIVE 230 75 34 114 73 aact:AA00798|5end_iron(III)_dicitrate_transport_system_permease_protein_546675..546905_POSITIVE 230 59 15 88 36 aact:AA00762|5end_hemoglobin_binding_protein_A_524199..524429_POSITIVE 229 62 23 59 15 aact:AA01675|5end_probable_multidrug_resistance_protein;_multidrug-efflux_transporter_1132115..1132345_POSITIVE 226 59 22 86 56 aact:AA00223|5end_catalase_(hydroperoxidase;_iron_heme_axial_ligand)_154277..154507_POSITIVE 225 86 45 128 84 aact:AA00267|5end_hypothetical_protein_187953..188183_POSITIVE 224 75 36 81 40 aact:AA01487|5end_ATP_synthase_F1,_subunit_delta_1000114..1000344_POSITIVE 222 65 21 107 59 aact:AA02720|5end_ABC-related_spermidine/putrescine_transport_system_permease_1903256..1903486_POSITIVE 220 60 11 160 105 aact:AA01464|5end_hypothetical_protein_984210..984440_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 274 70 21 98 22 aact:AA00574|3end_regulatory_protein_392381..392531_POSITIVE 254 75 34 57 8 aact:AA01017|3end_conserved_hypothetical_protein_711726..711876_POSITIVE 251 79 34 123 74 aact:AA01158|3end_ribosome_associated_heat_shock_protein_15_homolog_792892..793042_POSITIVE 245 75 33 119 75 aact:AA00550|3end_ferredoxin-type_protein_377201..377351_POSITIVE 244 69 23 151 110 aact:AA00164|3end_dephospho-CoA_kinase_(dephosphocoenzyme_A_kinase)_117445..117595_POSITIVE 234 46 9 85 34 aact:AA00660|3end_hypothetical_protein_453335..453485_POSITIVE 233 62 23 74 34 aact:AA01216|3end_conserved_hypothetical_protein_832709..832859_POSITIVE 232 66 22 45 3 aact:AA00847|3end_S-adenosyl-dependent_methyltransferase_586005..586155_POSITIVE 231 55 11 72 25 aact:AA02632|3end_rhamnosyltransferase_1832694..1832844_POSITIVE 230 75 34 111 70 aact:AA00796|3end_iron(III)_dicitrate_transport_system_permease_protein_546752..546902_POSITIVE 229 62 23 59 15 aact:AA01674|3end_hypothetical_protein_1132195..1132345_POSITIVE 224 75 36 65 24 aact:AA01486|3end_ATP_synthase_F1,_subunit_alpha_1000178..1000328_POSITIVE 222 65 21 104 56 aact:AA02719|3end_ABC-related_spermidine/putrescine_transport_system_permease_1903333..1903483_POSITIVE 221 70 22 142 93 aact:AA02566|3end_PTS_system,_IIC_component_1788179..1788329_POSITIVE 220 60 11 70 15 aact:AA01463|3end_probable_transport_protein_984200..984350_POSITIVE 220 67 22 142 96 aact:AA00467|3end_hypothetical_protein_324878..325028_POSITIVE 217 60 17 74 36 aact:AA01660|3end_hypothetical_protein_1125282..1125432_POSITIVE 214 76 35 138 94 aact:AA02463|3end_N-acetylglucosamine-6-phosphate_deacetylase_1703963..1704113_POSITIVE 214 76 31 113 55 aact:AA01423|3end_cell_division_protein_X,_ABC_system_permease_957680..957830_POSITIVE 211 70 22 126 83 aact:AA01818|3end_high-affinity_zinc_uptake_system_membrane_protein_1225078..1225228_POSITIVE