Origin IGS: tagtcaataacaaaagtgcggttaaaattcatagtgaatttcgaccgcactttttactttcaaatttttcaatagaataagacggagaatcaggagtaatatctaataaattctcagatgaaagtgcagttatttcaattaattatgttaattttcacaaagtaatataactgctaatctaataccgtccctaaaattataattatattttaaaggagcagt .........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 actgctcctttaaaatataattataattttagggacggtattagattagcagttatattactttgtgaaaattaacataattaattgaaataactgcactttcatctgagaatttattagatattactcctgattctccgtcttattctattgaaaaatttgaaagtaaaaagtgcggtcgaaattcactatgaattttaaccgcacttttgttattgacta Mask Tandem Repeat Region ================================================ tagtcaataacaaaagtgcggttaaaattcatagtgaatttcgaccgcactttttactttcaaatttttcaatagaataagacggagaatcaggagtaatatctaataaattctcagatgaaagtgcagttatttcaattaattatgttaattttcacaaagtaatataactgctaatctaataccgtccctaaaattataattatattttaaaggagcagt Find is-nt database================================================ Query_seq: AA02781:AA02782|AA02781:AA02782:protein-export membrane protein:outer membrane haemophore receptor (tonB related):->->:1946042..1946263 222 tagtcaataacaaaagtgcggttaaaattcatagtgaatttcgaccgcactttttactttcaaatttttcaatagaataagacggagaatcaggagtaatatctaataaattctcagatgaaagtgcagttatttcaattaattatgttaattttcacaaagtaatataactgctaatctaataccgtccctaaaattataattatattttaaaggagcagt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA02781:AA02782|AA02781:AA02782:protein-export membrane protein:outer membrane haemophore receptor (tonB related):->->:1946042..1946263 222 tagtcaataacaaaagtgcggttaaaattcatagtgaatttcgaccgcactttttactttcaaatttttcaatagaataagacggagaatcaggagtaatatctaataaattctcagatgaaagtgcagttatttcaattaattatgttaattttcacaaagtaatataactgctaatctaataccgtccctaaaattataattatattttaaaggagcagt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA02781:AA02782|AA02781:AA02782:protein-export membrane protein:outer membrane haemophore receptor (tonB related):->->:1946042..1946263 222 tagtcaataacaaaagtgcggttaaaattcatagtgaatttcgaccgcactttttactttcaaatttttcaatagaataagacggagaatcaggagtaatatctaataaattctcagatgaaagtgcagttatttcaattaattatgttaattttcacaaagtaatataactgctaatctaataccgtccctaaaattataattatattttaaaggagcagt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tagtcaataacaaaagtgcggttaaaattcatagtgaatttcgaccgcactttttactttcaaatttttcaatagaataagacggagaatcaggagtaatatctaataaattctcagatgaaagtgcagttatttcaattaattatgttaattttcacaaagtaatataactgctaatctaataccgtccctaaaattataattatattttaaaggagcagt Predict ORF larger than 30AA ================================================ Protein_Len: 36 Strand: - Start: 32 End: 139 ............................... L S N R G C K K S E F K E I S Y S P S D P T I D L L N E S S L A T I E M ................................................................................... tagtcaataacaaaagtgcggttaaaattcatagtgaatttcgaccgcactttttactttcaaatttttcaatagaataagacggagaatcaggagtaatatctaataaattctcagatgaaagtgcagttatttcaattaattatgttaattttcacaaagtaatataactgctaatctaataccgtccctaaaattataattatattttaaaggagcagt 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: 83 Start: 110 End: 139 .............................................................................................................ATTGAAATAACTGCACTTTCATCTGAGAAT................................................................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ tagtcaataacaaaagtgcggttaaaattcatagtgaatttcgaccgcactttttactttcaaatttttcaatagaataagacggagaatcaggagtaatatctaataaattctcagatgaaagtgcagttatttcaattaattatgttaattttcacaaagtaatataactgctaatctaataccgtccctaaaattataattatattttaaaggagcagt Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 100 HP_score: -12.9 Tail_Score: -3.53566 Start: 17 End: 49 Full_Region: tttgaaagtaaaaag tgcggtcgaaattca cta tgaattttaaccgca cttttgttattgact ................tgcggtcgaaattcactatgaattttaaccgca............................................................................................................................................................................. Find igs database================================================ Query_seq: AA02781:AA02782|AA02781:AA02782:protein-export membrane protein:outer membrane haemophore receptor (tonB related):->->:1946042..1946263 222 tagtcaataacaaaagtgcggttaaaattcatagtgaatttcgaccgcactttttactttcaaatttttcaatagaataagacggagaatcaggagtaatatctaataaattctcagatgaaagtgcagttatttcaattaattatgttaattttcacaaagtaatataactgctaatctaataccgtccctaaaattataattatattttaaaggagcagt Intra-Species Hit: Count: 1 Min: 1 Max: 222 Len: 222 Subject: aact_AA02781_AA02782|protein-export membrane protein:outer membrane haemophore receptor (tonB related)|POSITIVE:POSITIVE|[1946042,1946263]|222 HSP 1 e-value: 1.0E-123 bit: 440.0 Len: 222 Query Start:1 Query End:222 Subject Strand: POSITIVE Subject Start: 1 Subject End: 222 tagtcaataacaaaagtgcggttaaaattcatagtgaatttcgaccgcactttttactttcaaatttttcaatagaataagacggagaatcaggagtaatatctaataaattctcagatgaaagtgcagttatttcaattaattatgttaattttcacaaagtaatataactgctaatctaataccgtccctaaaattataattatattttaaaggagcagt tagtcaataacaaaagtgcggttaaaattcatagtgaatttcgaccgcactttttactttcaaatttttcaatagaataagacggagaatcaggagtaatatctaataaattctcagatgaaagtgcagttatttcaattaattatgttaattttcacaaagtaatataactgctaatctaataccgtccctaaaattataattatattttaaaggagcagt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGUCAAUAACAAAAGUGCGGUUAAAAUUCAUAGUGAAUUUCGACCGCACUUUUUACUUUCAAAUUUUUCAAUAGAAUAAGACGGAGAAUCAGGAGUAAUAUCUAAUAAAUUCUCAGAUGAAAGUGCAGUUAUUUCAAUUAAUUAUGUUAAUUUUCACAAAGUAAUAUAACUGCUAAUCUAAUACCGUCCCUAAAAUUAUAAUUAUAUUUUAAAGGAGCAGU ...........(((((((((((..((((((.....))))))..))))))))))).(((((((.....(((....))).......((((((..(((......))).....))))))...)))))))((((((((....((((....(((........)))...))))))))))))............(..((((((((.........)))))..)))..)... (-47.20) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ ACUGCUCCUUUAAAAUAUAAUUAUAAUUUUAGGGACGGUAUUAGAUUAGCAGUUAUAUUACUUUGUGAAAAUUAACAUAAUUAAUUGAAAUAACUGCACUUUCAUCUGAGAAUUUAUUAGAUAUUACUCCUGAUUCUCCGUCUUAUUCUAUUGAAAAAUUUGAAAGUAAAAAGUGCGGUCGAAAUUCACUAUGAAUUUUAACCGCACUUUUGUUAUUGACUA ..((((..((((((.................(((((((.(((((....((((((((.(((..(((((........))))).....))).))))))))......((((((.......)))))).......)))))...))))))).(((....)))...))))))))))(((((((((((..((((((.....))))))..)))))))))))........... (-55.30) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 599 60 13 211 165 aact:AA02754|5end_conserved_hypothetical_protein_1928949..1929179_POSITIVE 532 53 12 150 109 aact:AA02084|5end_conserved_hypothetical_protein_1417843..1418073_POSITIVE 511 55 13 226 184 aact:AA02476|5end_conserved_hypothetical_protein_1711610..1711840_POSITIVE 511 55 13 96 54 aact:AA02475|5end_hypothetical_protein_1711480..1711710_POSITIVE 502 53 12 156 115 aact:AA00473|5end_tryptophanyl-tRNA_synthetase_328996..329226_POSITIVE 492 55 13 160 118 aact:AA00759|5end_3-oxoacyl-[acyl-carrier-protein]_synthase_I_520603..520833_POSITIVE 484 58 11 80 31 aact:AA02002|5end_hypothetical_protein_1360196..1360426_POSITIVE 483 55 14 42 1 aact:AA00758|5end_hypothetical_protein_520485..520715_POSITIVE 481 55 11 167 122 aact:AA00899|5end_possible_quaternary_ammonium_compound_resistance_protein_623214..623444_POSITIVE 477 53 12 212 171 aact:AA01625|5end_riboflavin_synthase,_beta_chain_1099964..1100194_POSITIVE 470 56 12 84 40 aact:AA02378|5end_hypothetical_protein_1627753..1627983_POSITIVE 470 53 12 141 100 aact:AA00126|5end_conserved_hypothetical_protein_91053..91283_POSITIVE 467 53 12 149 108 aact:AA02010|5end_peptide_methionine_sulfoxide_reductase;_cytochrome_C-TYPE_biogenesis_protein;_transcriptional_regulator_1367180..1367410_POSITIVE 460 54 13 189 146 aact:AA02893|5end_oligopeptide_transport_system_permease_protein,_N-terminal_2027201..2027431_POSITIVE 451 55 12 154 111 aact:AA00124|5end_conserved_hypothetical_protein_(possible_cytoplasmic_protein)_90270..90500_POSITIVE 451 55 12 105 62 aact:AA00123|5end_hypothetical_protein_90221..90451_POSITIVE 451 55 12 96 53 aact:AA00122|5end_hypothetical_protein_90212..90442_POSITIVE 449 55 12 144 100 aact:AA00497|5end_hexose_phosphate_transport_system_regulatory_protein;_regulator_of_uhpT_expression_345077..345307_POSITIVE 431 55 11 163 119 aact:AA00625|5end_hypothetical_protein_430565..430795_POSITIVE 431 55 11 55 11 aact:AA00623|5end_hypothetical_protein_430457..430687_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 599 60 13 50 4 aact:AA02751|3end_L-lactate_permease_1928868..1929018_POSITIVE 532 53 12 75 34 aact:AA02082|3end_glutaminyl-tRNA_synthetase_1417848..1417998_POSITIVE 511 55 13 84 42 aact:AA02474|3end_transmembrane_protein_1711548..1711698_POSITIVE 502 53 12 63 22 aact:AA00471|3end_3,4-dihydroxy-2-butanone_4-phosphate_synthase;_GTP_cyclohydrase_II_328983..329133_POSITIVE 484 58 12 92 45 aact:AA02280|3end_conserved_hypothetical_protein_1552767..1552917_POSITIVE 481 55 11 79 34 aact:AA00896|3end_prolyl-tRNA_synthetase_(proline-tRNA_ligase)_623206..623356_POSITIVE 477 53 12 69 28 aact:AA01624|3end_glucose-6-phosphate_isomerase_1099901..1100051_POSITIVE 460 54 13 85 42 aact:AA02892|3end_oligopeptide_ABC_transporter,_periplasmic-binding_protein_2027177..2027327_POSITIVE 458 58 18 82 39 aact:AA01351|3end_probable_sulfatase_916393..916543_POSITIVE 451 55 12 85 42 aact:AA00120|3end_ATP-dependent_Clp_protease_ATP-binding_subunit_90281..90431_POSITIVE 449 55 12 126 82 aact:AA00495|3end_hypothetical_protein_345139..345289_POSITIVE 431 55 11 150 106 aact:AA00623|3end_hypothetical_protein_430632..430782_POSITIVE 428 55 12 83 40 aact:AA02360|3end_threonine_synthase_1619947..1620097_POSITIVE 426 54 13 81 40 aact:AA02338|3end_conserved_hypothetical_protein;_possible_integral_membrane_protein_1598885..1599035_POSITIVE 415 60 13 146 100 aact:AA02862|3end_hypothetical_protein_2008848..2008998_POSITIVE 408 58 11 85 39 aact:AA00191|3end_conserved_hypothetical_protein_(possible_acetyltransferase,_GNAT_family)_135545..135695_POSITIVE 405 54 12 80 38 aact:AA02756|3end_phosphoserine_aminotransferase_1930636..1930786_POSITIVE 399 54 12 79 37 aact:AA02781|3end_protein-export_membrane_protein_1945981..1946131_POSITIVE 399 59 12 89 38 aact:AA00799|3end_iron(III)_dicitrate_transport_ATP-binding_protein_548502..548652_POSITIVE 393 50 5 57 12 aact:AA02721|3end_spermidine/putrescine_ABC_transporter,_periplasmic-binding_protein_1905334..1905484_POSITIVE