Origin IGS: taatgaacgcagcataaatgatgaaaaggtctgatgtaatgtcaggccttttttctatgaaaaattaacagtgttttagtggcactaaaagtgcggtcattttctaagtca .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tgacttagaaaatgaccgcacttttagtgccactaaaacactgttaatttttcatagaaaaaaggcctgacattacatcagaccttttcatcatttatgctgcgttcatta Mask Tandem Repeat Region ================================================ taatgaacgcagcataaatgatgaaaaggtctgatgtaatgtcaggccttttttctatgaaaaattaacagtgttttagtggcactaaaagtgcggtcattttctaagtca Find is-nt database================================================ Query_seq: AA01292:AA01294|AA01292:AA01294:single-stranded DNA binding protein:DNA adenine methylase:->->:876444..876554 111 taatgaacgcagcataaatgatgaaaaggtctgatgtaatgtcaggccttttttctatgaaaaattaacagtgttttagtggcactaaaagtgcggtcattttctaagtca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA01292:AA01294|AA01292:AA01294:single-stranded DNA binding protein:DNA adenine methylase:->->:876444..876554 111 taatgaacgcagcataaatgatgaaaaggtctgatgtaatgtcaggccttttttctatgaaaaattaacagtgttttagtggcactaaaagtgcggtcattttctaagtca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA01292:AA01294|AA01292:AA01294:single-stranded DNA binding protein:DNA adenine methylase:->->:876444..876554 111 taatgaacgcagcataaatgatgaaaaggtctgatgtaatgtcaggccttttttctatgaaaaattaacagtgttttagtggcactaaaagtgcggtcattttctaagtca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taatgaacgcagcataaatgatgaaaaggtctgatgtaatgtcaggccttttttctatgaaaaattaacagtgttttagtggcactaaaagtgcggtcattttctaagtca Predict ORF larger than 30AA ================================================ taatgaacgcagcataaatgatgaaaaggtctgatgtaatgtcaggccttttttctatgaaaaattaacagtgttttagtggcactaaaagtgcggtcattttctaagtca 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================================================ PromScan Matrix: RpoN Strand: + Score: 81 Start: 79 End: 95 ..............................................................................GTGGCACTAAAAGTGCG................ taatgaacgcagcataaatgatgaaaaggtctgatgtaatgtcaggccttttttctatgaaaaattaacagtgttttagtggcactaaaagtgcggtcattttctaagtca Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA01292:AA01294|AA01292:AA01294:single-stranded DNA binding protein:DNA adenine methylase:->->:876444..876554 111 taatgaacgcagcataaatgatgaaaaggtctgatgtaatgtcaggccttttttctatgaaaaattaacagtgttttagtggcactaaaagtgcggtcattttctaagtca Intra-Species Hit: Count: 1 Min: 1 Max: 111 Len: 111 Subject: aact_AA01292_AA01294|single-stranded DNA binding protein:DNA adenine methylase|POSITIVE:POSITIVE|[876444,876554]|111 HSP 1 e-value: 7.0E-57 bit: 220.0 Len: 111 Query Start:1 Query End:111 Subject Strand: POSITIVE Subject Start: 1 Subject End: 111 taatgaacgcagcataaatgatgaaaaggtctgatgtaatgtcaggccttttttctatgaaaaattaacagtgttttagtggcactaaaagtgcggtcattttctaagtca taatgaacgcagcataaatgatgaaaaggtctgatgtaatgtcaggccttttttctatgaaaaattaacagtgttttagtggcactaaaagtgcggtcattttctaagtca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUGAACGCAGCAUAAAUGAUGAAAAGGUCUGAUGUAAUGUCAGGCCUUUUUUCUAUGAAAAAUUAACAGUGUUUUAGUGGCACUAAAAGUGCGGUCAUUUUCUAAGUCA .(((((.((((.((((...((.(((((((((((((.....)))))))))))))))))))..........((((((.....)))))).....)))).))))).......... (-31.70) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGACUUAGAAAAUGACCGCACUUUUAGUGCCACUAAAACACUGUUAAUUUUUCAUAGAAAAAAGGCCUGACAUUACAUCAGACCUUUUCAUCAUUUAUGCUGCGUUCAUUA ..........(((((.((((.((((((.....))))))..............((((((.((((((.((((.......)))).)))))).....)))))).)))).))))). (-21.60) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 342 103 77 94 68 aact:AA02577|5end_nuclease_1795267..1795497_POSITIVE 342 106 70 173 130 aact:AA00914|5end_aminoacyl-histidine_dipeptidase;_Beta-alanyl-histidine_dipeptidase_628038..628268_POSITIVE 341 107 68 223 186 aact:AA01609|5end_p-aminobenzoate_synthase_component_I_homolog_1087903..1088133_POSITIVE 331 107 64 68 29 aact:AA01271|5end_hypothetical_protein_863794..864024_POSITIVE 305 99 69 56 28 aact:AA01538|5end_conserved_hypothetical_protein_1031527..1031757_POSITIVE 299 104 63 190 152 aact:AA00390|5end_permease_263689..263919_POSITIVE 294 107 77 142 110 aact:AA02885|5end_conserved_hypothetical_protein_2022428..2022658_POSITIVE 290 110 65 174 123 aact:AA00616|5end_phosphatidate_cytidylyltransferase_421965..422195_POSITIVE 284 97 52 126 85 aact:AA00794|5end_phosphohydrolase_543653..543883_POSITIVE 283 49 2 199 148 aact:AA00201|5end_prolipoprotein_diacylglyceryl_transferase_139740..139970_POSITIVE 282 99 71 63 28 aact:AA02989|5end_conserved_hypothetical_protein_2089118..2089348_POSITIVE 281 104 82 228 204 aact:AA00169|5end_conserved_hypothetical_protein_120312..120542_POSITIVE 277 106 71 128 89 aact:AA00819|5end_D-alanyl-D-alanine_carboxypeptidase_562644..562874_POSITIVE 276 106 62 210 169 aact:AA01575|5end_conserved_hypothetical_protein_1061664..1061894_POSITIVE 275 107 79 126 99 aact:AA00458|5end_nickel-binding_periplasmic_protein_319374..319604_POSITIVE 274 103 70 94 55 aact:AA00991|5end_conserved_hypothetical_protein_693191..693421_POSITIVE 273 58 13 125 74 aact:AA02949|5end_hypothetical_protein_2061944..2062174_POSITIVE 271 103 66 137 92 aact:AA01475|5end_conserved_hypothetical_protein_(possible_cytoplasmic_protein;_DNA_binding_protein)_990364..990594_POSITIVE 269 107 67 174 121 aact:AA01173|5end_VapD-homolog_803850..804080_POSITIVE 267 96 68 231 204 aact:AA02531|5end_conserved_hypothetical_protein_1758383..1758613_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 342 106 70 87 44 aact:AA00912|3end_short-chain_dehydrogenase_628032..628182_POSITIVE 331 107 64 91 52 aact:AA01270|3end_hydrolase_(possible_2-haloalkanoic_acid_dehalogenase_I)_863897..864047_POSITIVE 305 99 69 56 28 aact:AA01537|3end_possible_glucokinase_regulatory_protein_1031607..1031757_POSITIVE 299 104 63 47 9 aact:AA00388|3end_uridine_phosphorylase;_possible_5'-methylthioadenosine_phosphorylase;_purine_nucleoside_phosphorylase_263626..263776_POSITIVE 294 107 77 61 29 aact:AA02883|3end_conserved_hypothetical_protein_2022427..2022577_POSITIVE 289 104 72 45 14 aact:AA02412|3end_cysteine_synthetase_1658552..1658702_POSITIVE 285 104 71 66 28 aact:AA00221|3end_NADP-specific_glutamate_dehydrogenase_153865..154015_POSITIVE 284 97 52 55 14 aact:AA00792|3end_conserved_hypothetical_protein_543662..543812_POSITIVE 283 49 2 148 97 aact:AA00200|3end_thymidylate_synthase_139769..139919_POSITIVE 282 99 71 59 24 aact:AA02987|3end_histidine_triad_protein_homolog_2089194..2089344_POSITIVE 281 104 82 76 52 aact:AA00168|3end_possible_sigma_54_modulation_protein_120240..120390_POSITIVE 275 107 79 57 30 aact:AA00455|3end_lipoprotein_precursor_319385..319535_POSITIVE 274 103 70 88 49 aact:AA00990|3end_conserved_hypothetical_protein_693265..693415_POSITIVE 273 109 81 29 1 aact:AA02697|3end_hydrogenase_3_maturation_protease_1880408..1880558_POSITIVE 271 103 66 124 79 aact:AA01474|3end_hypothetical_protein_990431..990581_POSITIVE 269 59 13 78 32 aact:AA01292|3end_single-stranded_DNA_binding_protein_876383..876533_POSITIVE 269 107 67 91 38 aact:AA01172|3end_conserved_hypothetical_protein_803847..803997_POSITIVE 266 103 78 29 5 aact:AA01057|3end_DnaJ-like_protein_djlA_735047..735197_POSITIVE 264 105 73 79 45 aact:AA01778|3end_aminopeptidase_A/I;_cytosol_aminopeptidase;_leucyl_aminopeptidase_1199965..1200115_POSITIVE 263 107 61 68 21 aact:AA00072|3end_conserved_hypothetical_protein_54947..55097_POSITIVE