Origin IGS: taacaattaagaccgaccgcacttgaaaaacattttcctgttcaagtgcggttttattttatctctacttttttaaattcaatttttcggcatagtagataaaatatctcatttcactta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taagtgaaatgagatattttatctactatgccgaaaaattgaatttaaaaaagtagagataaaataaaaccgcacttgaacaggaaaatgtttttcaagtgcggtcggtcttaattgtta Mask Tandem Repeat Region ================================================ taacaattaagaccgaccgcacttgaaaaacattttcctgttcaagtgcggttttattttatctctacttttttaaattcaatttttcggcatagtagataaaatatctcatttcactta Find is-nt database================================================ Query_seq: AA02000:AA02001|AA02000:AA02001:2,3,4,5-tetrahydropyridine-2-carboxylate:conserved hypothetical protein:->->:1359862..1359981 120 taacaattaagaccgaccgcacttgaaaaacattttcctgttcaagtgcggttttattttatctctacttttttaaattcaatttttcggcatagtagataaaatatctcatttcactta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA02000:AA02001|AA02000:AA02001:2,3,4,5-tetrahydropyridine-2-carboxylate:conserved hypothetical protein:->->:1359862..1359981 120 taacaattaagaccgaccgcacttgaaaaacattttcctgttcaagtgcggttttattttatctctacttttttaaattcaatttttcggcatagtagataaaatatctcatttcactta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA02000:AA02001|AA02000:AA02001:2,3,4,5-tetrahydropyridine-2-carboxylate:conserved hypothetical protein:->->:1359862..1359981 120 taacaattaagaccgaccgcacttgaaaaacattttcctgttcaagtgcggttttattttatctctacttttttaaattcaatttttcggcatagtagataaaatatctcatttcactta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taacaattaagaccgaccgcacttgaaaaacattttcctgttcaagtgcggttttattttatctctacttttttaaattcaatttttcggcatagtagataaaatatctcatttcactta Predict ORF larger than 30AA ================================================ taacaattaagaccgaccgcacttgaaaaacattttcctgttcaagtgcggttttattttatctctacttttttaaattcaatttttcggcatagtagataaaatatctcatttcactta 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================================================ taacaattaagaccgaccgcacttgaaaaacattttcctgttcaagtgcggttttattttatctctacttttttaaattcaatttttcggcatagtagataaaatatctcatttcactta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA02000:AA02001|AA02000:AA02001:2,3,4,5-tetrahydropyridine-2-carboxylate:conserved hypothetical protein:->->:1359862..1359981 120 taacaattaagaccgaccgcacttgaaaaacattttcctgttcaagtgcggttttattttatctctacttttttaaattcaatttttcggcatagtagataaaatatctcatttcactta Intra-Species Hit: Count: 1 Min: 1 Max: 120 Len: 120 Subject: aact_AA02000_AA02001|2,3,4, 5-tetrahydropyridine-2-carboxylate:conserved hypothetical protein|POSITIVE:POSITIVE|[1359862,1359981]|120 HSP 1 e-value: 3.0E-62 bit: 238.0 Len: 120 Query Start:1 Query End:120 Subject Strand: POSITIVE Subject Start: 1 Subject End: 120 taacaattaagaccgaccgcacttgaaaaacattttcctgttcaagtgcggttttattttatctctacttttttaaattcaatttttcggcatagtagataaaatatctcatttcactta taacaattaagaccgaccgcacttgaaaaacattttcctgttcaagtgcggttttattttatctctacttttttaaattcaatttttcggcatagtagataaaatatctcatttcactta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAACAAUUAAGACCGACCGCACUUGAAAAACAUUUUCCUGUUCAAGUGCGGUUUUAUUUUAUCUCUACUUUUUUAAAUUCAAUUUUUCGGCAUAGUAGAUAAAAUAUCUCAUUUCACUUA .......((((...((((((((((((...(((......))))))))))))))).(((((((((((((.......(((......)))......))).))))))))))..........)))) (-28.02) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAGUGAAAUGAGAUAUUUUAUCUACUAUGCCGAAAAAUUGAAUUUAAAAAAGUAGAGAUAAAAUAAAACCGCACUUGAACAGGAAAAUGUUUUUCAAGUGCGGUCGGUCUUAAUUGUUA .........(((((((((((((((.((((......((((...))))......)))))))))))))...((((((((((((((......)))...)))))))))))..))))))....... (-30.90) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 366 50 2 149 101 aact:AA01436|5end_fructose-bisphosphate_aldolase_class_II_962981..963211_POSITIVE 349 60 14 163 122 aact:AA00464|5end_conserved_hypothetical_protein_323912..324142_POSITIVE 328 60 14 149 110 aact:AA01936|5end_tyrosyl-tRNA_synthetase_1307043..1307273_POSITIVE 321 50 7 100 60 aact:AA01986|5end_pyruvate_dehydrogenase_complex_E2_1348753..1348983_POSITIVE 318 60 14 154 111 aact:AA00792|5end_conserved_hypothetical_protein_543142..543372_POSITIVE 313 59 15 171 122 aact:AA01305|5end_conserved_hypothetical_protein_885598..885828_POSITIVE 312 51 14 192 145 aact:AA02097|5end_DedA-family_integral_membrane_protein_1428823..1429053_POSITIVE 312 51 14 123 76 aact:AA02096|5end_hypothetical_protein_1428754..1428984_POSITIVE 310 52 14 149 116 aact:AA02381|5end_4-hydroxy-2-oxoglutarate_aldolase_1629192..1629422_POSITIVE 310 43 7 124 76 aact:AA01942|5end_hypothetical_protein_1312721..1312951_POSITIVE 310 99 51 227 183 aact:AA00317|5end_DNA_mismatch_repair_protein_215472..215702_POSITIVE 305 50 9 52 4 aact:AA00595|5end_hypothetical_protein_407194..407424_POSITIVE 300 47 2 193 140 aact:AA01981|5end_4-alpha-glucanotransferase_1337202..1337432_POSITIVE 293 60 14 171 126 aact:AA02410|5end_cell_division_protein_1655429..1655659_POSITIVE 292 54 15 153 123 aact:AA02963|5end_opacity_associated_protein_B_2072302..2072532_POSITIVE 292 60 15 155 115 aact:AA01692|5end_hexulose-6-phosphate_synthase_1149178..1149408_POSITIVE 288 47 8 46 1 aact:AA01978|5end_hypothetical_protein_1337055..1337285_POSITIVE 286 59 14 229 168 aact:AA02101|5end_penicillin-binding_protein_7_1430830..1431060_POSITIVE 285 53 14 139 110 aact:AA02137|5end_transcriptional_regulators_(TetR/AcrR_family)_1460453..1460683_POSITIVE 285 52 11 72 23 aact:AA00552|5end_periplasmic_nitrate_reductase_precursor_377331..377561_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 366 50 2 109 61 aact:AA01434|3end_conserved_hypothetical_protein_(possible_o-antigen_ligase)_963021..963171_POSITIVE 349 60 14 69 28 aact:AA00463|3end_class_B_acid_phosphatase_323898..324048_POSITIVE 321 49 9 146 104 aact:AA02184|3end_anthranilate_isomerase;_indole-3-glycerol_phosphate_synthase;_phosphoribosylanthranilate_isomerase_1492541..1492691_POSITIVE 321 50 7 68 28 aact:AA01985|3end_pyruvate_dehydrogenase,_E1_component_1348801..1348951_POSITIVE 318 60 14 66 23 aact:AA00790|3end_recombination_DNA_repair_protein_543134..543284_POSITIVE 313 59 15 73 24 aact:AA01304|3end_penicillin-binding_protein_1A_885580..885730_POSITIVE 312 51 14 67 20 aact:AA02094|3end_glycogen_phosphorylase;_glycogen_synthase_1428778..1428928_POSITIVE 310 52 14 57 24 aact:AA02380|3end_iron_chelatin_ABC_transporter,periplasmic-binding_protein_1629180..1629330_POSITIVE 305 50 8 84 31 aact:AA02813|3end_hypothetical_protein_1980298..1980448_POSITIVE 305 50 9 64 16 aact:AA00592|3end_conserved_hypothetical_protein_(membrane/transport_protein)_407286..407436_POSITIVE 300 52 12 75 36 aact:AA02000|3end_2,3,4,5-tetrahydropyridine-2-carboxylate_1359801..1359951_POSITIVE 293 60 14 66 21 aact:AA02409|3end_DNA_ligase_1655404..1655554_POSITIVE 292 54 15 56 26 aact:AA02962|3end_recombination_associated_protein_2072285..2072435_POSITIVE 286 59 14 78 17 aact:AA02100|3end_lipoprotein_1430759..1430909_POSITIVE 285 53 14 82 53 aact:AA02136|3end_aspartate_aminotransferase_1460476..1460626_POSITIVE 285 52 11 64 15 aact:AA00551|3end_hypothetical_protein_377403..377553_POSITIVE 281 53 14 61 31 aact:AA00453|3end_phosphoglyceromutase_318009..318159_POSITIVE 279 52 14 88 49 aact:AA02075|3end_conserved_hypothetical_protein_1409979..1410129_POSITIVE 277 24 3 151 130 aact:AA00267|3end_hypothetical_protein_188143..188293_POSITIVE 274 52 15 70 38 aact:AA00508|3end_SAM-dependent_methyltransferase_353883..354033_POSITIVE