Origin IGS: attccgttataacggttaataataagacacaatgatagcataattttgctgaaaacgataaaaaagcaatataaagtacggtcgccctcgccgacgttttttataagaagatttccttgcccgggtcaggaacatttcacaaaaaaacagtccaaggacgggtatttgagagattaaaaaatgtaattctatttgacattcattcggatttcgtagagtatcacaacctatttttattcattaaaggcaattcaagccgtaacctagcagtttt .........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 aaaactgctaggttacggcttgaattgcctttaatgaataaaaataggttgtgatactctacgaaatccgaatgaatgtcaaatagaattacattttttaatctctcaaatacccgtccttggactgtttttttgtgaaatgttcctgacccgggcaaggaaatcttcttataaaaaacgtcggcgagggcgaccgtactttatattgcttttttatcgttttcagcaaaattatgctatcattgtgtcttattattaaccgttataacggaat Mask Tandem Repeat Region ================================================ attccgttataacggttaataataagacacaatgatagcataattttgctgaaaacgataaaaaagcaatataaagtacggtcgccctcgccgacgttttttataagaagatttccttgcccgggtcaggaacatttcacaaaaaaacagtccaaggacgggtatttgagagattaaaaaatgtaattctatttgacattcattcggatttcgtagagtatcacaacctatttttattcattaaaggcaattcaagccgtaacctagcagtttt Find is-nt database================================================ Query_seq: AA02323:AA02324|AA02323:AA02324:conserved hypothetical protein:ABC transporter ATP binding protein:->->:1586384..1586657 274 attccgttataacggttaataataagacacaatgatagcataattttgctgaaaacgataaaaaagcaatataaagtacggtcgccctcgccgacgttttttataagaagatttccttgcccgggtcaggaacatttcacaaaaaaacagtccaaggacgggtatttgagagattaaaaaatgtaattctatttgacattcattcggatttcgtagagtatcacaacctatttttattcattaaaggcaattcaagccgtaacctagcagtttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA02323:AA02324|AA02323:AA02324:conserved hypothetical protein:ABC transporter ATP binding protein:->->:1586384..1586657 274 attccgttataacggttaataataagacacaatgatagcataattttgctgaaaacgataaaaaagcaatataaagtacggtcgccctcgccgacgttttttataagaagatttccttgcccgggtcaggaacatttcacaaaaaaacagtccaaggacgggtatttgagagattaaaaaatgtaattctatttgacattcattcggatttcgtagagtatcacaacctatttttattcattaaaggcaattcaagccgtaacctagcagtttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA02323:AA02324|AA02323:AA02324:conserved hypothetical protein:ABC transporter ATP binding protein:->->:1586384..1586657 274 attccgttataacggttaataataagacacaatgatagcataattttgctgaaaacgataaaaaagcaatataaagtacggtcgccctcgccgacgttttttataagaagatttccttgcccgggtcaggaacatttcacaaaaaaacagtccaaggacgggtatttgagagattaaaaaatgtaattctatttgacattcattcggatttcgtagagtatcacaacctatttttattcattaaaggcaattcaagccgtaacctagcagtttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 attccgttataacggttaataataagacacaatgatagcataattttgctgaaaacgataaaaaagcaatataaagtacggtcgccctcgccgacgttttttataagaagatttccttgcccgggtcaggaacatttcacaaaaaaacagtccaaggacgggtatttgagagattaaaaaatgtaattctatttgacattcattcggatttcgtagagtatcacaacctatttttattcattaaaggcaattcaagccgtaacctagcagtttt Predict ORF larger than 30AA ================================================ Protein_Len: 52 Strand: + Start: 19 End: 174 .................. M I R H N D S I I L L K T I K K Q Y K V R S P S P T F F I R R F P C P G Q E H F T K K Q S K D G Y L R D .................................................................................................... Protein_Len: 54 Strand: + Start: 111 End: 272 .............................................................................................................. M S L P G S G T F H K K T V Q G R V F E R L K N V I L F D I H S D F V E Y H N L F L F I K G N S S R N L A V .. Protein_Len: 60 Strand: - Start: 19 End: 237 .................. Y F L L I F Y P R G R R R K K Y S S K R A R T L F M E C F F L G L V P I Q S I L F H L E I Q C E N P N R L T D C G I K M ..................................... Protein_Len: 34 Strand: - Start: 3 End: 104 .. G N Y R N I I L C L S L M I K S F V I F F C Y L T R D G E G V N K M .......................................................................................................................................................................... attccgttataacggttaataataagacacaatgatagcataattttgctgaaaacgataaaaaagcaatataaagtacggtcgccctcgccgacgttttttataagaagatttccttgcccgggtcaggaacatttcacaaaaaaacagtccaaggacgggtatttgagagattaaaaaatgtaattctatttgacattcattcggatttcgtagagtatcacaacctatttttattcattaaaggcaattcaagccgtaacctagcagtttt 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: 81 Start: 192 End: 221 ...............................................................................................................................................................................................TTTGACATTCATTCGGATTTCGTAGAGTAT..................................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ attccgttataacggttaataataagacacaatgatagcataattttgctgaaaacgataaaaaagcaatataaagtacggtcgccctcgccgacgttttttataagaagatttccttgcccgggtcaggaacatttcacaaaaaaacagtccaaggacgggtatttgagagattaaaaaatgtaattctatttgacattcattcggatttcgtagagtatcacaacctatttttattcattaaaggcaattcaagccgtaacctagcagtttt Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 70 HP_score: -2.1 Tail_Score: -5.24129 Start: 80 End: 96 Full_Region: AGCAATATAAAGTAC GGTCGCC CTC GCCGACG TTTTTTATAAGAAGA ...............................................................................GGTCGCCCTCGCCGACG.................................................................................................................................................................................. TransTerm Strand: - Conf: 78 HP_score: -2.3 Tail_Score: -5.626 Start: 148 End: 161 Full_Region: taatctctcaaatac ccgtc cttg gactg tttttttgtgaaatg ...................................................................................................................................................ccgtccttggactg................................................................................................................. Find igs database================================================ Query_seq: AA02323:AA02324|AA02323:AA02324:conserved hypothetical protein:ABC transporter ATP binding protein:->->:1586384..1586657 274 attccgttataacggttaataataagacacaatgatagcataattttgctgaaaacgataaaaaagcaatataaagtacggtcgccctcgccgacgttttttataagaagatttccttgcccgggtcaggaacatttcacaaaaaaacagtccaaggacgggtatttgagagattaaaaaatgtaattctatttgacattcattcggatttcgtagagtatcacaacctatttttattcattaaaggcaattcaagccgtaacctagcagtttt Intra-Species Hit: Count: 1 Min: 1 Max: 274 Len: 274 Subject: aact_AA02323_AA02324|conserved hypothetical protein:ABC transporter ATP binding protein|POSITIVE:POSITIVE|[1586384,1586657]|274 HSP 1 e-value: 1.0E-141 bit: 502.0 Len: 274 Query Start:1 Query End:274 Subject Strand: POSITIVE Subject Start: 1 Subject End: 274 attccgttataacggttaataataagacacaatgatagcataattttgctgaaaacgataaaaaagcaatataaagtacggtcgccctcgccgacgttttttataagaagatttccttgcccgggtcaggaacatttcacnnnnnnncagtccaaggacgggtatttgagagattaaaaaatgtaattctatttgacattcattcggatttcgtagagtatcacaacctatttttattcattaaaggcaattcaagccgtaacctagcagtttt attccgttataacggttaataataagacacaatgatagcataattttgctgaaaacgataaaaaagcaatataaagtacggtcgccctcgccgacgttttttataagaagatttccttgcccgggtcaggaacatttcacaaaaaaacagtccaaggacgggtatttgagagattaaaaaatgtaattctatttgacattcattcggatttcgtagagtatcacaacctatttttattcattaaaggcaattcaagccgtaacctagcagtttt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUUCCGUUAUAACGGUUAAUAAUAAGACACAAUGAUAGCAUAAUUUUGCUGAAAACGAUAAAAAAGCAAUAUAAAGUACGGUCGCCCUCGCCGACGUUUUUUAUAAGAAGAUUUCCUUGCCCGGGUCAGGAACAUUUCACAAAAAAACAGUCCAAGGACGGGUAUUUGAGAGAUUAAAAAAUGUAAUUCUAUUUGACAUUCAUUCGGAUUUCGUAGAGUAUCACAACCUAUUUUUAUUCAUUAAAGGCAAUUCAAGCCGUAACCUAGCAGUUUU ...((((....))))........(((((.......(((((......)))))..............((.........((((((.......(((((((((((((....((((..(((((.((....)).)))))..))))...))))))).)))..(((..((((((((..((((((....((((.(((((.....)).)))))))..))))))...))))))).)..)))................))).......)))))).....)).))))) (-51.68) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAAACUGCUAGGUUACGGCUUGAAUUGCCUUUAAUGAAUAAAAAUAGGUUGUGAUACUCUACGAAAUCCGAAUGAAUGUCAAAUAGAAUUACAUUUUUUAAUCUCUCAAAUACCCGUCCUUGGACUGUUUUUUUGUGAAAUGUUCCUGACCCGGGCAAGGAAAUCUUCUUAUAAAAAACGUCGGCGAGGGCGACCGUACUUUAUAUUGCUUUUUUAUCGUUUUCAGCAAAAUUAUGCUAUCAUUGUGUCUUAUUAUUAACCGUUAUAACGGAAU ..((((....))))..(((.......)))..((((((......(((((..(..(((...((((......(((((....((.....))....)))))..................(((((((((((.(((((((...(((...(((((..(....)..)))))...)))....))))))))))..))))))))..)))).....)))..)...))))).......((((......)))).))))))..............((((....))))... (-50.90) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 351 124 82 204 147 aact:AA01019|5end_conserved_hypothetical_protein_712223..712453_POSITIVE 342 123 84 104 68 aact:AA01770|5end_hypothetical_protein_1193111..1193341_POSITIVE 294 130 82 190 138 aact:AA02351|5end_conserved_hypothetical_protein_1609233..1609463_POSITIVE 292 130 83 59 16 aact:AA01151|5end_porphobilinogen_synthase_(delta-aminolevulinic_acid_dehydratase)_788323..788553_POSITIVE 292 96 78 165 145 aact:AA00634|5end_DNA_polymerase_IV_(Pol_IV)_435182..435412_POSITIVE 290 130 81 224 170 aact:AA00516|5end_autoinducer-2_production_protein_355931..356161_POSITIVE 288 120 76 101 52 aact:AA00603|5end_undecaprenyl_pyrophosphate_synthetase_(UPPS)_410283..410513_POSITIVE 285 117 78 159 115 aact:AA02989|5end_conserved_hypothetical_protein_2089118..2089348_POSITIVE 285 90 44 71 31 aact:AA02487|5end_hypothetical_protein_1726277..1726507_POSITIVE 281 127 86 229 174 aact:AA02699|5end_formate_dehydrogenase_H,_selenopolypeptide_subunit_1881397..1881627_POSITIVE 281 117 77 108 62 aact:AA00658|5end_hypothetical_protein_451618..451848_POSITIVE 280 126 81 231 183 aact:AA02375|5end_D-3-phosphoglycerate_dehydrogenase_1626514..1626744_POSITIVE 280 130 81 121 65 aact:AA01174|5end_hypothetical_protein_804700..804930_POSITIVE 280 123 81 171 119 aact:AA01070|5end_DNA_repair_protein_740920..741150_POSITIVE 280 129 84 171 124 aact:AA00895|5end_hypothetical_protein_621285..621515_POSITIVE 279 129 81 68 11 aact:AA02700|5end_succinyl-CoA_synthase,_alpha_subunit_1883256..1883486_POSITIVE 279 130 84 200 150 aact:AA01589|5end_conserved_hypothetical_protein_1070300..1070530_POSITIVE 279 130 81 174 104 aact:AA00424|5end_hypothetical_protein_287123..287353_POSITIVE 278 128 83 65 9 aact:AA01009|5end_universal_stress_protein_A_704443..704673_POSITIVE 278 130 82 177 112 aact:AA00507|5end_hypothetical_protein_352996..353226_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 342 123 84 45 9 aact:AA01769|3end_hypothetical_protein_1193132..1193282_POSITIVE 294 130 82 56 4 aact:AA02350|3end_possible_lipoprotein_1609179..1609329_POSITIVE 292 96 78 70 50 aact:AA00633|3end_hypothetical_protein_435167..435317_POSITIVE 283 127 83 123 64 aact:AA02697|3end_hydrogenase_3_maturation_protease_1880408..1880558_POSITIVE 279 129 82 111 46 aact:AA00042|3end_hypothetical_protein_34255..34405_POSITIVE 278 126 81 69 21 aact:AA01962|3end_recombination_protein_rec2_1328706..1328856_POSITIVE 274 268 225 136 85 aact:AA01628|3end_thiamin-monophosphate_kinase_1101948..1102098_POSITIVE 273 128 82 146 98 aact:AA02802|3end_probable_myo-inositol_2-dehydrogenase_1970086..1970236_POSITIVE 272 130 88 51 8 aact:AA00514|3end_hypothetical_protein_355838..355988_POSITIVE 271 129 87 143 97 aact:AA01284|3end_heat_shock_protein_(hsp60)_870294..870444_POSITIVE 270 130 84 151 112 aact:AA00326|3end_periplasmic_oxidoreductase_(por)_(Thiol:disulfide_interchange_protein_dsbA_precursor.)_222397..222547_POSITIVE 268 104 62 59 12 aact:AA00894|3end_selenium_transferase_(Cysteinyl-tRNA(Sec)_selenium_transferase)_621350..621500_POSITIVE 267 105 66 70 32 aact:AA02932|3end_lytic_murein_transglycosylase_A_2053544..2053694_POSITIVE 264 102 62 87 50 aact:AA02142|3end_outer_membrane_protein_OprM_precursor_1467532..1467682_POSITIVE 264 108 66 69 25 aact:AA00885|3end_ribosomal_large_subunit_pseudouridine_synthase_c_616659..616809_POSITIVE 262 129 83 135 94 aact:AA01062|3end_ribonuclease_PH_(RNase_PH)_736499..736649_POSITIVE 260 96 66 37 1 aact:AA02486|3end_topoisomerase_IV,_subunit_B_1726312..1726462_POSITIVE 259 128 81 136 98 aact:AA02564|3end_transketolase_N-terminal_section_1786783..1786933_POSITIVE 259 120 74 85 24 aact:AA02044|3end_phosphotransferase_system_enzyme_II,_galactitol_specific,_protein_A_1392014..1392164_POSITIVE 258 98 66 126 97 aact:AA01273|3end_hypothetical_protein_864588..864738_POSITIVE