Origin IGS: ctgccactcgccttgaaacaaacagcgaatattcacttcaccgctcacctgcgctaattgaataagtttatctaagcaatccataatgagattttaaatataaaagttaagacgaattggcaagtatgatacaagaattttcctataatttatctcgaaatttaaacacatattcaaggagaaaatt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aattttctccttgaatatgtgtttaaatttcgagataaattataggaaaattcttgtatcatacttgccaattcgtcttaacttttatatttaaaatctcattatggattgcttagataaacttattcaattagcgcaggtgagcggtgaagtgaatattcgctgtttgtttcaaggcgagtggcag Mask Tandem Repeat Region ================================================ ctgccactcgccttgaaacaaacagcgaatattcacttcaccgctcacctgcgctaattgaataagtttatctaagcaatccataatgagattttaaatataaaagttaagacgaattggcaagtatgatacaagaattttcctataatttatctcgaaatttaaacacatattcaaggagaaaatt Find is-nt database================================================ Query_seq: AA01394:AA01395|AA01394:AA01395:transcriptional regulator (mtr efflux pump):conserved hypothetical protein:->->:943272..943458 187 ctgccactcgccttgaaacaaacagcgaatattcacttcaccgctcacctgcgctaattgaataagtttatctaagcaatccataatgagattttaaatataaaagttaagacgaattggcaagtatgatacaagaattttcctataatttatctcgaaatttaaacacatattcaaggagaaaatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA01394:AA01395|AA01394:AA01395:transcriptional regulator (mtr efflux pump):conserved hypothetical protein:->->:943272..943458 187 ctgccactcgccttgaaacaaacagcgaatattcacttcaccgctcacctgcgctaattgaataagtttatctaagcaatccataatgagattttaaatataaaagttaagacgaattggcaagtatgatacaagaattttcctataatttatctcgaaatttaaacacatattcaaggagaaaatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA01394:AA01395|AA01394:AA01395:transcriptional regulator (mtr efflux pump):conserved hypothetical protein:->->:943272..943458 187 ctgccactcgccttgaaacaaacagcgaatattcacttcaccgctcacctgcgctaattgaataagtttatctaagcaatccataatgagattttaaatataaaagttaagacgaattggcaagtatgatacaagaattttcctataatttatctcgaaatttaaacacatattcaaggagaaaatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ctgccactcgccttgaaacaaacagcgaatattcacttcaccgctcacctgcgctaattgaataagtttatctaagcaatccataatgagattttaaatataaaagttaagacgaattggcaagtatgatacaagaattttcctataatttatctcgaaatttaaacacatattcaaggagaaaatt Predict ORF larger than 30AA ================================================ Protein_Len: 30 Strand: - Start: 97 End: 186 ................................................................................................ I Y F N L R I P L Y S V L I K R Y N I E F N L C M N L S F M . ctgccactcgccttgaaacaaacagcgaatattcacttcaccgctcacctgcgctaattgaataagtttatctaagcaatccataatgagattttaaatataaaagttaagacgaattggcaagtatgatacaagaattttcctataatttatctcgaaatttaaacacatattcaaggagaaaatt 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================================================ ctgccactcgccttgaaacaaacagcgaatattcacttcaccgctcacctgcgctaattgaataagtttatctaagcaatccataatgagattttaaatataaaagttaagacgaattggcaagtatgatacaagaattttcctataatttatctcgaaatttaaacacatattcaaggagaaaatt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA01394:AA01395|AA01394:AA01395:transcriptional regulator (mtr efflux pump):conserved hypothetical protein:->->:943272..943458 187 ctgccactcgccttgaaacaaacagcgaatattcacttcaccgctcacctgcgctaattgaataagtttatctaagcaatccataatgagattttaaatataaaagttaagacgaattggcaagtatgatacaagaattttcctataatttatctcgaaatttaaacacatattcaaggagaaaatt Intra-Species Hit: Count: 1 Min: 1 Max: 187 Len: 187 Subject: aact_AA01394_AA01395|transcriptional regulator (mtr efflux pump):conserved hypothetical protein|POSITIVE:POSITIVE|[943272,943458]|187 HSP 1 e-value: 1.0E-102 bit: 371.0 Len: 187 Query Start:1 Query End:187 Subject Strand: POSITIVE Subject Start: 1 Subject End: 187 ctgccactcgccttgaaacaaacagcgaatattcacttcaccgctcacctgcgctaattgaataagtttatctaagcaatccataatgagattttaaatataaaagttaagacgaattggcaagtatgatacaagaattttcctataatttatctcgaaatttaaacacatattcaaggagaaaatt ctgccactcgccttgaaacaaacagcgaatattcacttcaccgctcacctgcgctaattgaataagtttatctaagcaatccataatgagattttaaatataaaagttaagacgaattggcaagtatgatacaagaattttcctataatttatctcgaaatttaaacacatattcaaggagaaaatt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CUGCCACUCGCCUUGAAACAAACAGCGAAUAUUCACUUCACCGCUCACCUGCGCUAAUUGAAUAAGUUUAUCUAAGCAAUCCAUAAUGAGAUUUUAAAUAUAAAAGUUAAGACGAAUUGGCAAGUAUGAUACAAGAAUUUUCCUAUAAUUUAUCUCGAAAUUUAAACACAUAUUCAAGGAGAAAAUU .......((.(((((((............((((((.((...(((......)))..)).)))))).((((....)))).........((((((...((.((((...(((((......)))))..(((...)))...........)))).)).))))))...............))))))).))..... (-25.50) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAUUUUCUCCUUGAAUAUGUGUUUAAAUUUCGAGAUAAAUUAUAGGAAAAUUCUUGUAUCAUACUUGCCAAUUCGUCUUAACUUUUAUAUUUAAAAUCUCAUUAUGGAUUGCUUAGAUAAACUUAUUCAAUUAGCGCAGGUGAGCGGUGAAGUGAAUAUUCGCUGUUUGUUUCAAGGCGAGUGGCAG .........((((((.............))))))......(((((((....))))))).......(((((.((((((((........((((((((((((......)))))..)))))))..................(((..(((((((((.......)))))))))..))).))))))))))))). (-41.72) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 379 50 2 186 131 aact:AA01792|5end_conserved_hypothetical_protein_1208058..1208288_POSITIVE 343 57 12 60 13 aact:AA00804|5end_fumarate_reductase_flavoprotein_subunit_A_549770..550000_POSITIVE 325 60 11 212 158 aact:AA01107|5end_adenylosuccinate_lyase_762310..762540_POSITIVE 303 44 2 89 41 aact:AA01989|5end_hypothetical_protein_1352039..1352269_POSITIVE 293 79 35 106 65 aact:AA01846|5end_conserved_hypothetical_protein_1241843..1242073_POSITIVE 288 49 1 61 13 aact:AA02035|5end_translation_initiation_factor_IF-3_1386349..1386579_POSITIVE 283 49 2 208 152 aact:AA00333|5end_1-phosphofructokinase;_tagatose-6-phosphate_kinase_225543..225773_POSITIVE 282 43 1 204 164 aact:AA00416|5end_D-methionine_transport_system_permease_protein_(ABC_transport_system)_282677..282907_POSITIVE 279 49 3 199 152 aact:AA00208|5end_D-ribose_ABC_transporter,_permease_protein_/_Galactoside_transport_system_permease_protein_144097..144327_POSITIVE 278 90 41 116 67 aact:AA01645|5end_ferric_transport_ABC-related_ATP-binding_protein_1114016..1114246_POSITIVE 274 50 1 206 148 aact:AA02076|5end_conserved_hypothetical_protein_1409926..1410156_POSITIVE 274 80 37 64 18 aact:AA01657|5end_maltose_high-affinity_receptor_1122735..1122965_POSITIVE 270 54 11 67 19 aact:AA01056|5end_conserved_hypothetical_protein_733867..734097_POSITIVE 269 50 7 222 189 aact:AA01316|5end_hypothetical_protein_891262..891492_POSITIVE 269 50 3 107 49 aact:AA00523|5end_conserved_hypothetical_protein_358472..358702_POSITIVE 266 43 1 132 94 aact:AA01753|5end_conserved_hypothetical_protein_1185322..1185552_POSITIVE 264 54 26 213 186 aact:AA02933|5end_conserved_hypothetical_protein_(HesA/MoeB/ThiF_family_protein)_2053467..2053697_POSITIVE 264 54 12 152 107 aact:AA02410|5end_cell_division_protein_1655429..1655659_POSITIVE 264 74 31 57 16 aact:AA01556|5end_ABC_transporter_ATP-binding_protein_1044218..1044448_POSITIVE 264 68 37 172 130 aact:AA01147|5end_nucleotidyltransferase_784860..785090_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 289 44 1 70 15 aact:AA00980|3end_hypothetical_protein_685409..685559_POSITIVE 283 56 23 98 63 aact:AA00987|3end_tetracenomycin_polyketide_synthesis_O-methyltransferase_690586..690736_POSITIVE 281 48 2 125 91 aact:AA00475|3end_conserved_hypothetical_protein_(possible_N6-adenine-specific_methylase)_332282..332432_POSITIVE 277 49 3 39 1 aact:AA01842|3end_conserved_hypothetical_protein_1238467..1238617_POSITIVE 274 82 41 64 20 aact:AA00585|3end_glycerol-3-phosphate_regulon_repressor_399778..399928_POSITIVE 270 54 11 60 12 aact:AA01054|3end_conserved_hypothetical_protein_733940..734090_POSITIVE 269 47 1 101 45 aact:AA00042|3end_hypothetical_protein_34255..34405_POSITIVE 266 43 5 148 105 aact:AA02411|3end_cysteine_synthetase_1657504..1657654_POSITIVE 266 43 1 122 84 aact:AA01751|3end_conserved_hypothetical_protein_1185392..1185542_POSITIVE 265 49 1 115 69 aact:AA01566|3end_conserved_hypothetical_protein_1052091..1052241_POSITIVE 265 49 1 115 69 aact:AA01261|3end_conserved_hypothetical_protein_856723..856873_POSITIVE 264 54 12 47 2 aact:AA02409|3end_DNA_ligase_1655404..1655554_POSITIVE 264 74 31 82 41 aact:AA01555|3end_ABC_transporter,_ATP-binding_protein_1044323..1044473_POSITIVE 259 54 20 111 79 aact:AA02013|3end_carbonic_anhydrase_1370374..1370524_POSITIVE 256 61 24 74 44 aact:AA01568|3end_dipeptide_transport_system_ATP-binding_protein_1056932..1057082_POSITIVE 255 69 23 105 64 aact:AA01829|3end_hypothetical_protein_1231662..1231812_POSITIVE 252 49 2 53 4 aact:AA01772|3end_shikimate_5-dehydrogenase_protein_1194942..1195092_POSITIVE 251 49 5 90 39 aact:AA02037|3end_hypothetical_protein_1387052..1387202_POSITIVE 251 59 26 123 94 aact:AA01398|3end_KDO_kinase_945691..945841_POSITIVE 246 49 1 141 93 aact:AA03008|3end_GTP-binding_protein_era_homolog_(GTPase)_2101072..2101222_POSITIVE