Origin IGS: gagaaattcctttaaattaaggttaaaaaagtgcggtcattatagcggaagtttgtgaaatctgaaaacaaaaagggtcggcttgaccgaccctgagcagaagaaaggaaatta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taatttcctttcttctgctcagggtcggtcaagccgaccctttttgttttcagatttcacaaacttccgctataatgaccgcacttttttaaccttaatttaaaggaatttctc Mask Tandem Repeat Region ================================================ gagaaattcctttaaattaaggttaaaaaagtgcggtcattatagcggaagtttgtgaaatctgaaaacaaaaagggtcggcttgaccgaccctgagcagaagaaaggaaatta Find is-nt database================================================ Query_seq: AA00189:AA00190|AA00189:AA00190:dihydroxynaphthoic acid synthase (naphthoate synthas):triosephosphate isomerase:->->:134114..134227 114 gagaaattcctttaaattaaggttaaaaaagtgcggtcattatagcggaagtttgtgaaatctgaaaacaaaaagggtcggcttgaccgaccctgagcagaagaaaggaaatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA00189:AA00190|AA00189:AA00190:dihydroxynaphthoic acid synthase (naphthoate synthas):triosephosphate isomerase:->->:134114..134227 114 gagaaattcctttaaattaaggttaaaaaagtgcggtcattatagcggaagtttgtgaaatctgaaaacaaaaagggtcggcttgaccgaccctgagcagaagaaaggaaatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA00189:AA00190|AA00189:AA00190:dihydroxynaphthoic acid synthase (naphthoate synthas):triosephosphate isomerase:->->:134114..134227 114 gagaaattcctttaaattaaggttaaaaaagtgcggtcattatagcggaagtttgtgaaatctgaaaacaaaaagggtcggcttgaccgaccctgagcagaagaaaggaaatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gagaaattcctttaaattaaggttaaaaaagtgcggtcattatagcggaagtttgtgaaatctgaaaacaaaaagggtcggcttgaccgaccctgagcagaagaaaggaaatta Predict ORF larger than 30AA ================================================ gagaaattcctttaaattaaggttaaaaaagtgcggtcattatagcggaagtttgtgaaatctgaaaacaaaaagggtcggcttgaccgaccctgagcagaagaaaggaaatta 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: 84 Start: 39 End: 68 ......................................TTTTCAGATTTCACAAACTTCCGCTATAAT.............................................. Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ gagaaattcctttaaattaaggttaaaaaagtgcggtcattatagcggaagtttgtgaaatctgaaaacaaaaagggtcggcttgaccgaccctgagcagaagaaaggaaatta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA00189:AA00190|AA00189:AA00190:dihydroxynaphthoic acid synthase (naphthoate synthas):triosephosphate isomerase:->->:134114..134227 114 gagaaattcctttaaattaaggttaaaaaagtgcggtcattatagcggaagtttgtgaaatctgaaaacaaaaagggtcggcttgaccgaccctgagcagaagaaaggaaatta Intra-Species Hit: Count: 1 Min: 1 Max: 114 Len: 114 Subject: aact_AA00189_AA00190|dihydroxynaphthoic acid synthase (naphthoate synthas):triosephosphate isomerase|POSITIVE:POSITIVE|[134114,134227]|114 HSP 1 e-value: 1.0E-58 bit: 226.0 Len: 114 Query Start:1 Query End:114 Subject Strand: POSITIVE Subject Start: 1 Subject End: 114 gagaaattcctttaaattaaggttaaaaaagtgcggtcattatagcggaagtttgtgaaatctgaaaacaaaaagggtcggcttgaccgaccctgagcagaagaaaggaaatta gagaaattcctttaaattaaggttaaaaaagtgcggtcattatagcggaagtttgtgaaatctgaaaacaaaaagggtcggcttgaccgaccctgagcagaagaaaggaaatta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GAGAAAUUCCUUUAAAUUAAGGUUAAAAAAGUGCGGUCAUUAUAGCGGAAGUUUGUGAAAUCUGAAAACAAAAAGGGUCGGCUUGACCGACCCUGAGCAGAAGAAAGGAAAUUA ......(((((((...((...(((......((.(((((((...(((....))).))))...)))...))....((((((((.....)))))))).)))..)).))))))).... (-31.60) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUUUCCUUUCUUCUGCUCAGGGUCGGUCAAGCCGACCCUUUUUGUUUUCAGAUUUCACAAACUUCCGCUAUAAUGACCGCACUUUUUUAACCUUAAUUUAAAGGAAUUUCUC ....(((((((..((((..(((((((((.....)))))))....))....))))..............((..........))...................)))))))...... (-22.40) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 364 63 27 150 115 aact:AA00635|5end_dihydropteroate_synthase_435897..436127_POSITIVE 342 108 67 56 11 aact:AA02676|5end_formate_dehydrogenase_alpha_subunit_1861671..1861901_POSITIVE 312 47 7 140 97 aact:AA01085|5end_mutator_mutT_protein_(7,8-dihydro-8-oxoguanine-triphosphatase)_(8-oxo-dGTPase)_(dGTP_pyrophosphohydrolase)_750970..751200_POSITIVE 308 89 43 201 155 aact:AA02713|5end_possible_prop_effector_homolog_1894984..1895214_POSITIVE 308 110 74 98 55 aact:AA00865|5end_conserved_hypothetical_protein_599473..599703_POSITIVE 303 63 26 213 176 aact:AA02714|5end_paraquat-inducible_protein_PqiA_homolog_1895807..1896037_POSITIVE 303 54 27 78 51 aact:AA01751|5end_conserved_hypothetical_protein_1184620..1184850_POSITIVE 300 47 1 126 77 aact:AA01954|5end_excinuclease_ABC,_subunit_C_1320468..1320698_POSITIVE 300 68 28 143 99 aact:AA01059|5end_orotate_phosphoribosyltransferase_735052..735282_POSITIVE 292 102 68 66 30 aact:AA02046|5end_PTS_system_galactitol-specific_enzyme_IIC_1392246..1392476_POSITIVE 292 79 31 168 116 aact:AA00174|5end_ribosomal_protein_L11_methyltransferase_123072..123302_POSITIVE 292 79 31 64 12 aact:AA00173|5end_hypothetical_protein_122968..123198_POSITIVE 287 39 16 172 148 aact:AA00337|5end_conserved_hypothetical_protein_228264..228494_POSITIVE 286 100 51 161 106 aact:AA00383|5end_chloride_channel_protein_258894..259124_POSITIVE 285 80 31 168 122 aact:AA02553|5end_acylphosphatase_1779321..1779551_POSITIVE 284 79 32 182 135 aact:AA02848|5end_conserved_hypothetical_protein_1999698..1999928_POSITIVE 284 109 61 63 8 aact:AA02443|5end_cytochrome_C_related_protein_1686202..1686432_POSITIVE 284 66 25 168 124 aact:AA00047|5end_formate_dependent_nitrite_reductase,_cytochrome_c552_36753..36983_POSITIVE 282 109 73 196 160 aact:AA01106|5end_conserved_hypothetical_protein_761675..761905_POSITIVE 275 95 51 196 150 aact:AA01839|5end_conserved_hypothetical_protein_(possible_transcriptional_regulator)_1236870..1237100_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 312 47 7 60 17 aact:AA01083|3end_preprotein_translocase_SecA_subunit_750970..751120_POSITIVE 308 89 43 124 78 aact:AA02712|3end_tail_specific_protease_precursor_1894987..1895137_POSITIVE 300 68 28 58 14 aact:AA01057|3end_DnaJ-like_protein_djlA_735047..735197_POSITIVE 292 102 68 57 21 aact:AA02045|3end_PTS_system,_galactitol-specific_IIB_component_1392317..1392467_POSITIVE 291 70 27 141 97 aact:AA00173|3end_hypothetical_protein_123137..123287_POSITIVE 287 39 16 58 34 aact:AA00335|3end_PTS_fructose-specific_IIBC_component_228230..228380_POSITIVE 286 100 51 72 17 aact:AA00382|3end_hypothetical_protein_258885..259035_POSITIVE 285 54 19 99 63 aact:AA02253|3end_hypothetical_protein_1534786..1534936_POSITIVE 284 65 21 83 46 aact:AA00221|3end_NADP-specific_glutamate_dehydrogenase_153865..154015_POSITIVE 284 66 25 91 47 aact:AA00046|3end_formate_dependent_nitrite_reductase,_cytochrome-c_type_protein_36756..36906_POSITIVE 282 109 73 83 47 aact:AA01104|3end_conserved_hypothetical_protein_761642..761792_POSITIVE 269 93 74 132 112 aact:AA01988|3end_dihydrolipoamide_dehydrogenase;_lipoamide_dehydrogenase_1352018..1352168_POSITIVE 268 106 61 106 63 aact:AA01194|3end_acyl_carrier_protein_819923..820073_POSITIVE 266 47 27 61 37 aact:AA02834|3end_colicin_transport_protein_1991768..1991918_POSITIVE 266 109 75 53 13 aact:AA02442|3end_thioredoxin-family_protein_1686272..1686422_POSITIVE 262 64 28 110 79 aact:AA02075|3end_conserved_hypothetical_protein_1409979..1410129_POSITIVE 262 90 44 56 6 aact:AA00194|3end_oxygen-independent_coproporphyrinogen_III_oxidase_136989..137139_POSITIVE 262 64 21 123 83 aact:AA00117|3end_hypothetical_protein_88418..88568_POSITIVE 261 68 26 61 14 aact:AA00927|3end_ATP-dependent_DNA_helicase_637777..637927_POSITIVE 260 110 77 55 26 aact:AA01342|3end_conserved_hypotheticl_protein_(possible_ribosomal_RNA_adenine_dimethylase)_911085..911235_POSITIVE