Origin IGS: aattcatccttaaaaaataaagttatttaatttttagtctaatttttcgaaatcgaaaaaccattcttccataataaaattaaaaaagagtctgatttaacatgcctccttttcggcttgaatttataccacaaaaaaatatgaatcccttctaatataaatgtatcaattcaataggttacgactattgttttaccctaaaatagaaacaatacttaatcttgcatattaaaaaaccatttattaatccttctttaaacaaggttaaatctttccctccaaacttataatctaaaaaaattatattttaatcggttaaaatagttacctgccgagaccttttttaaagctatcaccacacgagccattactcaaaaaaataaaacacctgccaaaacgaccgcactttttgccaaatccattaaagtgcggttaaaaattccgttgttttttgctataatcccgcgcaattttgcttcccgattttatgaattaacccatt .........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.........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 aatgggttaattcataaaatcgggaagcaaaattgcgcgggattatagcaaaaaacaacggaatttttaaccgcactttaatggatttggcaaaaagtgcggtcgttttggcaggtgttttatttttttgagtaatggctcgtgtggtgatagctttaaaaaaggtctcggcaggtaactattttaaccgattaaaatataatttttttagattataagtttggagggaaagatttaaccttgtttaaagaaggattaataaatggttttttaatatgcaagattaagtattgtttctattttagggtaaaacaatagtcgtaacctattgaattgatacatttatattagaagggattcatatttttttgtggtataaattcaagccgaaaaggaggcatgttaaatcagactcttttttaattttattatggaagaatggtttttcgatttcgaaaaattagactaaaaattaaataactttattttttaaggatgaatt Mask Tandem Repeat Region ================================================ aattcatccttaaaaaataaagttatttaatttttagtctaatttttcgaaatcgaaaaaccattcttccataataaaattaaaaaagagtctgatttaacatgcctccttttcggcttgaatttataccacaaaaaaatatgaatcccttctaatataaatgtatcaattcaataggttacgactattgttttaccctaaaatagaaacaatacttaatcttgcatattaaaaaaccatttattaatccttctttaaacaaggttaaatctttccctccaaacttataatctaaaaaaattatattttaatcggttaaaatagttacctgccgagaccttttttaaagctatcaccacacgagccattactcaaaaaaataaaacacctgccaaaacgaccgcactttttgccaaatccattaaagtgcggttaaaaattccgttgttttttgctataatcccgcgcaattttgcttcccgattttatgaattaacccatt Find is-nt database================================================ Query_seq: AA02485:AA02486|AA02485:AA02486:outer membrane protein 100:topoisomerase IV, subunit B:->->:1723975..1724476 502 aattcatccttaaaaaataaagttatttaatttttagtctaatttttcgaaatcgaaaaaccattcttccataataaaattaaaaaagagtctgatttaacatgcctccttttcggcttgaatttataccacaaaaaaatatgaatcccttctaatataaatgtatcaattcaataggttacgactattgttttaccctaaaatagaaacaatacttaatcttgcatattaaaaaaccatttattaatccttctttaaacaaggttaaatctttccctccaaacttataatctaaaaaaattatattttaatcggttaaaatagttacctgccgagaccttttttaaagctatcaccacacgagccattactcaaaaaaataaaacacctgccaaaacgaccgcactttttgccaaatccattaaagtgcggttaaaaattccgttgttttttgctataatcccgcgcaattttgcttcccgattttatgaattaacccatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA02485:AA02486|AA02485:AA02486:outer membrane protein 100:topoisomerase IV, subunit B:->->:1723975..1724476 502 aattcatccttaaaaaataaagttatttaatttttagtctaatttttcgaaatcgaaaaaccattcttccataataaaattaaaaaagagtctgatttaacatgcctccttttcggcttgaatttataccacaaaaaaatatgaatcccttctaatataaatgtatcaattcaataggttacgactattgttttaccctaaaatagaaacaatacttaatcttgcatattaaaaaaccatttattaatccttctttaaacaaggttaaatctttccctccaaacttataatctaaaaaaattatattttaatcggttaaaatagttacctgccgagaccttttttaaagctatcaccacacgagccattactcaaaaaaataaaacacctgccaaaacgaccgcactttttgccaaatccattaaagtgcggttaaaaattccgttgttttttgctataatcccgcgcaattttgcttcccgattttatgaattaacccatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA02485:AA02486|AA02485:AA02486:outer membrane protein 100:topoisomerase IV, subunit B:->->:1723975..1724476 502 aattcatccttaaaaaataaagttatttaatttttagtctaatttttcgaaatcgaaaaaccattcttccataataaaattaaaaaagagtctgatttaacatgcctccttttcggcttgaatttataccacaaaaaaatatgaatcccttctaatataaatgtatcaattcaataggttacgactattgttttaccctaaaatagaaacaatacttaatcttgcatattaaaaaaccatttattaatccttctttaaacaaggttaaatctttccctccaaacttataatctaaaaaaattatattttaatcggttaaaatagttacctgccgagaccttttttaaagctatcaccacacgagccattactcaaaaaaataaaacacctgccaaaacgaccgcactttttgccaaatccattaaagtgcggttaaaaattccgttgttttttgctataatcccgcgcaattttgcttcccgattttatgaattaacccatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aattcatccttaaaaaataaagttatttaatttttagtctaatttttcgaaatcgaaaaaccattcttccataataaaattaaaaaagagtctgatttaacatgcctccttttcggcttgaatttataccacaaaaaaatatgaatcccttctaatataaatgtatcaattcaataggttacgactattgttttaccctaaaatagaaacaatacttaatcttgcatattaaaaaaccatttattaatccttctttaaacaaggttaaatctttccctccaaacttataatctaaaaaaattatattttaatcggttaaaatagttacctgccgagaccttttttaaagctatcaccacacgagccattactcaaaaaaataaaacacctgccaaaacgaccgcactttttgccaaatccattaaagtgcggttaaaaattccgttgttttttgctataatcccgcgcaattttgcttcccgattttatgaattaacccatt Predict ORF larger than 30AA ================================================ Protein_Len: 30 Strand: + Start: 52 End: 141 ................................................... M E K P F F H N K I K K E S D L T C L L F G L N L Y H K K I ......................................................................................................................................................................................................................................................................................................................................................................... Protein_Len: 35 Strand: + Start: 329 End: 433 ........................................................................................................................................................................................................................................................................................................................................ M P R P F L K L S P H E P L L K K I K H L P K R P H F L P N P L K C G ..................................................................... Protein_Len: 50 Strand: + Start: 352 End: 501 ............................................................................................................................................................................................................................................................................................................................................................... M T T R A I T Q K N K T P A K T T A L F A K S I K V R L K I P L F F A I I P R N F A S R F Y E L T H . Protein_Len: 32 Strand: - Start: 375 End: 470 ...................................................................................................................................................................................................................................................................................................................................................................................... F F L V G A L V V A S K A L D M L T R N F I G N N K A I I G R M ................................ Protein_Len: 39 Strand: - Start: 188 End: 304 ........................................................................................................................................................................................... Q K V R F Y F C Y K I K C I L F G N I L G E K F L T L D K G G F K Y D L F I M ...................................................................................................................................................................................................... Protein_Len: 43 Strand: - Start: 42 End: 170 ......................................... N K S I S F G N K W L L I L F S D S K V H R R K P K F K Y W L F I H I G E L I F T D M ............................................................................................................................................................................................................................................................................................................................................ aattcatccttaaaaaataaagttatttaatttttagtctaatttttcgaaatcgaaaaaccattcttccataataaaattaaaaaagagtctgatttaacatgcctccttttcggcttgaatttataccacaaaaaaatatgaatcccttctaatataaatgtatcaattcaataggttacgactattgttttaccctaaaatagaaacaatacttaatcttgcatattaaaaaaccatttattaatccttctttaaacaaggttaaatctttccctccaaacttataatctaaaaaaattatattttaatcggttaaaatagttacctgccgagaccttttttaaagctatcaccacacgagccattactcaaaaaaataaaacacctgccaaaacgaccgcactttttgccaaatccattaaagtgcggttaaaaattccgttgttttttgctataatcccgcgcaattttgcttcccgattttatgaattaacccatt 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: 88 Start: 432 End: 461 ...............................................................................................................................................................................................................................................................................................................................................................................................................................................GTTAAAAATTCCGTTGTTTTTTGCTATAAT......................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ aattcatccttaaaaaataaagttatttaatttttagtctaatttttcgaaatcgaaaaaccattcttccataataaaattaaaaaagagtctgatttaacatgcctccttttcggcttgaatttataccacaaaaaaatatgaatcccttctaatataaatgtatcaattcaataggttacgactattgttttaccctaaaatagaaacaatacttaatcttgcatattaaaaaaccatttattaatccttctttaaacaaggttaaatctttccctccaaacttataatctaaaaaaattatattttaatcggttaaaatagttacctgccgagaccttttttaaagctatcaccacacgagccattactcaaaaaaataaaacacctgccaaaacgaccgcactttttgccaaatccattaaagtgcggttaaaaattccgttgttttttgctataatcccgcgcaattttgcttcccgattttatgaattaacccatt Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 55 HP_score: -3.2 Tail_Score: -4.14243 Start: 172 End: 190 Full_Region: ATAAATGTATCAATT CAATAG GTTACGA CTATTG TTTTACCCTAAAATA ...........................................................................................................................................................................CAATAGGTTACGACTATTG........................................................................................................................................................................................................................................................................................................................ TransTerm Strand: - Conf: 48 HP_score: -3.8 Tail_Score: -3.08508 Start: 401 End: 432 Full_Region: caacggaatttttaa ccgcactttaatg gatttgg caaaaagtgcgg tcgttttggcaggtg ................................................................................................................................................................................................................................................................................................................................................................................................................ccgcactttaatggatttggcaaaaagtgcgg...................................................................... Find igs database================================================ Query_seq: AA02485:AA02486|AA02485:AA02486:outer membrane protein 100:topoisomerase IV, subunit B:->->:1723975..1724476 502 aattcatccttaaaaaataaagttatttaatttttagtctaatttttcgaaatcgaaaaaccattcttccataataaaattaaaaaagagtctgatttaacatgcctccttttcggcttgaatttataccacaaaaaaatatgaatcccttctaatataaatgtatcaattcaataggttacgactattgttttaccctaaaatagaaacaatacttaatcttgcatattaaaaaaccatttattaatccttctttaaacaaggttaaatctttccctccaaacttataatctaaaaaaattatattttaatcggttaaaatagttacctgccgagaccttttttaaagctatcaccacacgagccattactcaaaaaaataaaacacctgccaaaacgaccgcactttttgccaaatccattaaagtgcggttaaaaattccgttgttttttgctataatcccgcgcaattttgcttcccgattttatgaattaacccatt Intra-Species Hit: Count: 1 Min: 1 Max: 502 Len: 502 Subject: aact_AA02485_AA02486|outer membrane protein 100:topoisomerase IV, subunit B|POSITIVE:POSITIVE|[1723975,1724476]|502 HSP 1 e-value: 0.0 bit: 870.0 Len: 502 Query Start:1 Query End:502 Subject Strand: POSITIVE Subject Start: 1 Subject End: 502 aattcatccttaaaaaataaagttatttaatttttagtctaatttttcgaaatcgaaaaaccattcttccataataaaattaaaaaagagtctgatttaacatgcctccttttcggcttgaatttataccacnnnnnnntatgaatcccttctaatataaatgtatcaattcaataggttacgactattgttttaccctaaaatagaaacaatacttaatcttgcatattaaaaaaccatttattaatccttctttaaacaaggttaaatctttccctccaaacttataatctnnnnnnnttatattttaatcggttaaaatagttacctgccgagaccttttttaaagctatcaccacacgagccattactcnnnnnnntaaaacacctgccaaaacgaccgcactttttgccaaatccattaaagtgcggttaaaaattccgttgttttttgctataatcccgcgcaattttgcttcccgattttatgaattaacccatt aattcatccttaaaaaataaagttatttaatttttagtctaatttttcgaaatcgaaaaaccattcttccataataaaattaaaaaagagtctgatttaacatgcctccttttcggcttgaatttataccacaaaaaaatatgaatcccttctaatataaatgtatcaattcaataggttacgactattgttttaccctaaaatagaaacaatacttaatcttgcatattaaaaaaccatttattaatccttctttaaacaaggttaaatctttccctccaaacttataatctaaaaaaattatattttaatcggttaaaatagttacctgccgagaccttttttaaagctatcaccacacgagccattactcaaaaaaataaaacacctgccaaaacgaccgcactttttgccaaatccattaaagtgcggttaaaaattccgttgttttttgctataatcccgcgcaattttgcttcccgattttatgaattaacccatt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAUUCAUCCUUAAAAAAUAAAGUUAUUUAAUUUUUAGUCUAAUUUUUCGAAAUCGAAAAACCAUUCUUCCAUAAUAAAAUUAAAAAAGAGUCUGAUUUAACAUGCCUCCUUUUCGGCUUGAAUUUAUACCACAAAAAAAUAUGAAUCCCUUCUAAUAUAAAUGUAUCAAUUCAAUAGGUUACGACUAUUGUUUUACCCUAAAAUAGAAACAAUACUUAAUCUUGCAUAUUAAAAAACCAUUUAUUAAUCCUUCUUUAAACAAGGUUAAAUCUUUCCCUCCAAACUUAUAAUCUAAAAAAAUUAUAUUUUAAUCGGUUAAAAUAGUUACCUGCCGAGACCUUUUUUAAAGCUAUCACCACACGAGCCAUUACUCAAAAAAAUAAAACACCUGCCAAAACGACCGCACUUUUUGCCAAAUCCAUUAAAGUGCGGUUAAAAAUUCCGUUGUUUUUUGCUAUAAUCCCGCGCAAUUUUGCUUCCCGAUUUUAUGAAUUAACCCAUU (((((((...((((((((((..((((((......((((....(((((((....)))))))...................(((((((((.((((..........(((........))).((((((.((((.............(((....)))..........)))).)))))).(((((.((...(((((((((...........)))))))))....................((((.....((((.((((........)))))))).................((((((........))))))........))))......)).)))))...))))))))))))).)))).........(((......)))....))))))...............(((((((((((.((.......))..)))))))))))..........))))))))))............(((....)))...........)))))))........ (-74.20) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAUGGGUUAAUUCAUAAAAUCGGGAAGCAAAAUUGCGCGGGAUUAUAGCAAAAAACAACGGAAUUUUUAACCGCACUUUAAUGGAUUUGGCAAAAAGUGCGGUCGUUUUGGCAGGUGUUUUAUUUUUUUGAGUAAUGGCUCGUGUGGUGAUAGCUUUAAAAAAGGUCUCGGCAGGUAACUAUUUUAACCGAUUAAAAUAUAAUUUUUUUAGAUUAUAAGUUUGGAGGGAAAGAUUUAACCUUGUUUAAAGAAGGAUUAAUAAAUGGUUUUUUAAUAUGCAAGAUUAAGUAUUGUUUCUAUUUUAGGGUAAAACAAUAGUCGUAACCUAUUGAAUUGAUACAUUUAUAUUAGAAGGGAUUCAUAUUUUUUUGUGGUAUAAAUUCAAGCCGAAAAGGAGGCAUGUUAAAUCAGACUCUUUUUUAAUUUUAUUAUGGAAGAAUGGUUUUUCGAUUUCGAAAAAUUAGACUAAAAAUUAAAUAACUUUAUUUUUUAAGGAUGAAUU ...(((((((.((....((((((.........((((.(((((((.......((((((.((((((.....((((((((((..((.......)).)))))))))).)))))).....))))))..(((((.((((.((.(((.....))).)).)))).))))).))))))))))).............)))))).........(((((((((((.....)))))))))))..)).)))))))(((((((...((((((((.(((.(((((((((((((((..(((....((((((((.((((....)))))))))))))))....(((.(((..((((...((((((((((.((((((.......)))))).))))))))))))))..)))..)))..))))))))))..))))).))).))))))))........((..((((((((((....))))))))))..)).....))))))).(((((.....)))))....... (-110.15) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 499 435 394 167 122 aact:AA02410|5end_cell_division_protein_1655429..1655659_POSITIVE 487 435 395 145 107 aact:AA01936|5end_tyrosyl-tRNA_synthetase_1307043..1307273_POSITIVE 460 433 394 102 62 aact:AA01986|5end_pyruvate_dehydrogenase_complex_E2_1348753..1348983_POSITIVE 439 435 391 147 100 aact:AA01603|5end_oligopeptidase_A_1082898..1083128_POSITIVE 433 434 394 147 107 aact:AA02937|5end_conserved_hypothetical_protein_2056379..2056609_POSITIVE 428 435 394 159 118 aact:AA00464|5end_conserved_hypothetical_protein_323912..324142_POSITIVE 402 446 401 230 189 aact:AA00505|5end_hypothetical_protein_351561..351791_POSITIVE 400 440 397 145 109 aact:AA02137|5end_transcriptional_regulators_(TetR/AcrR_family)_1460453..1460683_POSITIVE 398 468 424 116 79 aact:AA02362|5end_conserved_hypothetical_protein_1619905..1620135_POSITIVE 398 434 394 177 136 aact:AA00386|5end_aspartate--ammonia_ligase_(asparagine_synthetase_A)_261150..261380_POSITIVE 396 435 394 153 110 aact:AA01436|5end_fructose-bisphosphate_aldolase_class_II_962981..963211_POSITIVE 393 434 392 146 102 aact:AA00987|5end_tetracenomycin_polyketide_synthesis_O-methyltransferase_689745..689975_POSITIVE 393 434 394 152 118 aact:AA00454|5end_conserved_hypothetical_protein_318020..318250_POSITIVE 392 490 454 53 17 aact:AA01565|5end_conserved_hypothetical_protein_1050711..1050941_POSITIVE 389 433 392 221 178 aact:AA00976|5end_conserved_hypothetical_protein_681206..681436_POSITIVE 388 468 423 185 145 aact:AA02893|5end_oligopeptide_transport_system_permease_protein,_N-terminal_2027201..2027431_POSITIVE 386 468 424 146 109 aact:AA02010|5end_peptide_methionine_sulfoxide_reductase;_cytochrome_C-TYPE_biogenesis_protein;_transcriptional_regulator_1367180..1367410_POSITIVE 385 455 413 60 10 aact:AA01877|5end_conserved_hypothetical_protein_1264115..1264345_POSITIVE 384 433 394 146 107 aact:AA00613|5end_lipid-A-disaccharide_synthase_418713..418943_POSITIVE 381 433 391 226 190 aact:AA00347|5end_50S_ribosomal_protein_L11_232137..232367_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 499 435 394 62 17 aact:AA02409|3end_DNA_ligase_1655404..1655554_POSITIVE 460 433 394 70 30 aact:AA01985|3end_pyruvate_dehydrogenase,_E1_component_1348801..1348951_POSITIVE 433 434 394 61 21 aact:AA02936|3end_lipoprotein_E_precursor;_outer_membrane_protein_P4_precursor;_acid_phosphatase_2056373..2056523_POSITIVE 428 435 394 65 24 aact:AA00463|3end_class_B_acid_phosphatase_323898..324048_POSITIVE 427 420 382 139 102 aact:AA01259|3end_protoporphyrinogen_oxidase_854943..855093_POSITIVE 400 440 397 88 52 aact:AA02136|3end_aspartate_aminotransferase_1460476..1460626_POSITIVE 398 468 424 78 41 aact:AA02360|3end_threonine_synthase_1619947..1620097_POSITIVE 398 434 394 115 74 aact:AA00384|3end_conserved_hypothetical_protein_(possible_nitrogen_fixation_protein)_261168..261318_POSITIVE 396 435 394 113 70 aact:AA01434|3end_conserved_hypothetical_protein_(possible_o-antigen_ligase)_963021..963171_POSITIVE 393 434 392 62 18 aact:AA00985|3end_transcriptional_regulator_(LysR_family)_689741..689891_POSITIVE 393 434 394 61 27 aact:AA00453|3end_phosphoglyceromutase_318009..318159_POSITIVE 389 433 392 62 19 aact:AA00974|3end_glucosamine-fructose-6-phosphate_681127..681277_POSITIVE 388 468 423 81 41 aact:AA02892|3end_oligopeptide_ABC_transporter,_periplasmic-binding_protein_2027177..2027327_POSITIVE 387 440 391 74 31 aact:AA00345|3end_transcription_antitermination_protein_232058..232208_POSITIVE 384 433 394 58 19 aact:AA00612|3end_acyl-(acyl-carrier-protein)-UDP-N-acetylglucosami_ne_418705..418855_POSITIVE 379 433 394 70 41 aact:AA00702|3end_conserved_hypothetical_protein_483848..483998_POSITIVE 378 434 392 60 14 aact:AA00790|3end_recombination_DNA_repair_protein_543134..543284_POSITIVE 378 430 382 96 52 aact:AA00578|3end_DNA_topoisomerase_395201..395351_POSITIVE 376 433 391 76 33 aact:AA01517|3end_peptidyl-prolyl_cis-trans_isomerase;_macrophage_infectivity_protein_1021791..1021941_POSITIVE 371 435 394 78 27 aact:AA02715|3end_paraquat-inducible_protein_pqiB_homolog_1899787..1899937_POSITIVE