Origin IGS: ggcgttttgagcgttggttttgccaacgacccctatggggtgagtaaatcagctatgctgatttacgaataaaaataaccgcactttatggcgggcatgaaagtgcggtcgtttcttgtgatgttttta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taaaaacatcacaagaaacgaccgcactttcatgcccgccataaagtgcggttatttttattcgtaaatcagcatagctgatttactcaccccataggggtcgttggcaaaaccaacgctcaaaacgcc Mask Tandem Repeat Region ================================================ ggcgttttgagcgttggttttgccaacgacccctatggggtgagtaaatcagctatgctgatttacgaataaaaataaccgcactttatggcgggcatgaaagtgcggtcgtttcttgtgatgttttta Find is-nt database================================================ Query_seq: AA01934:AA01936|AA01934:AA01936:conserved hypothetical protein:tyrosyl-tRNA synthetase:->->:1307054..1307182 129 ggcgttttgagcgttggttttgccaacgacccctatggggtgagtaaatcagctatgctgatttacgaataaaaataaccgcactttatggcgggcatgaaagtgcggtcgtttcttgtgatgttttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA01934:AA01936|AA01934:AA01936:conserved hypothetical protein:tyrosyl-tRNA synthetase:->->:1307054..1307182 129 ggcgttttgagcgttggttttgccaacgacccctatggggtgagtaaatcagctatgctgatttacgaataaaaataaccgcactttatggcgggcatgaaagtgcggtcgtttcttgtgatgttttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA01934:AA01936|AA01934:AA01936:conserved hypothetical protein:tyrosyl-tRNA synthetase:->->:1307054..1307182 129 ggcgttttgagcgttggttttgccaacgacccctatggggtgagtaaatcagctatgctgatttacgaataaaaataaccgcactttatggcgggcatgaaagtgcggtcgtttcttgtgatgttttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ggcgttttgagcgttggttttgccaacgacccctatggggtgagtaaatcagctatgctgatttacgaataaaaataaccgcactttatggcgggcatgaaagtgcggtcgtttcttgtgatgttttta Predict ORF larger than 30AA ================================================ ggcgttttgagcgttggttttgccaacgacccctatggggtgagtaaatcagctatgctgatttacgaataaaaataaccgcactttatggcgggcatgaaagtgcggtcgtttcttgtgatgttttta 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================================================ ggcgttttgagcgttggttttgccaacgacccctatggggtgagtaaatcagctatgctgatttacgaataaaaataaccgcactttatggcgggcatgaaagtgcggtcgtttcttgtgatgttttta Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 75 HP_score: -6.3 Tail_Score: -4.40181 Start: 76 End: 111 Full_Region: ATTTACGAATAAAAA TAACCGCACTTTATG GCGGG CATGAAAGTGCGGTCG TTTCTTGTGATGTTT ...........................................................................TAACCGCACTTTATGGCGGGCATGAAAGTGCGGTCG.................. TransTerm Strand: + Conf: 62 HP_score: -7.6 Tail_Score: -3.22482 Start: 77 End: 110 Full_Region: TTTACGAATAAAAAT AACCGCACTTTATG GCGGG CATGAAAGTGCGGTC GTTTCTTGTGATGTT ............................................................................AACCGCACTTTATGGCGGGCATGAAAGTGCGGTC................... TransTerm Strand: + Conf: 74 HP_score: -10.2 Tail_Score: -3.16079 Start: 79 End: 108 Full_Region: TACGAATAAAAATAA CCGCACTTTATG GCGGG CATGAAAGTGCGG TCGTTTCTTGTGATG ..............................................................................CCGCACTTTATGGCGGGCATGAAAGTGCGG..................... Find igs database================================================ Query_seq: AA01934:AA01936|AA01934:AA01936:conserved hypothetical protein:tyrosyl-tRNA synthetase:->->:1307054..1307182 129 ggcgttttgagcgttggttttgccaacgacccctatggggtgagtaaatcagctatgctgatttacgaataaaaataaccgcactttatggcgggcatgaaagtgcggtcgtttcttgtgatgttttta Intra-Species Hit: Count: 1 Min: 1 Max: 129 Len: 129 Subject: aact_AA01934_AA01936|conserved hypothetical protein:tyrosyl-tRNA synthetase|POSITIVE:POSITIVE|[1307054,1307182]|129 HSP 1 e-value: 2.0E-67 bit: 256.0 Len: 129 Query Start:1 Query End:129 Subject Strand: POSITIVE Subject Start: 1 Subject End: 129 ggcgttttgagcgttggttttgccaacgacccctatggggtgagtaaatcagctatgctgatttacgaataaaaataaccgcactttatggcgggcatgaaagtgcggtcgtttcttgtgatgttttta ggcgttttgagcgttggttttgccaacgacccctatggggtgagtaaatcagctatgctgatttacgaataaaaataaccgcactttatggcgggcatgaaagtgcggtcgtttcttgtgatgttttta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GGCGUUUUGAGCGUUGGUUUUGCCAACGACCCCUAUGGGGUGAGUAAAUCAGCUAUGCUGAUUUACGAAUAAAAAUAACCGCACUUUAUGGCGGGCAUGAAAGUGCGGUCGUUUCUUGUGAUGUUUUUA ((((((.((((((((((.....))))))(((((...)))))..((((((((((...))))))))))......(((..(((((((((((((.....)))).)))))))))..))))))).)))))).... (-47.20) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAAACAUCACAAGAAACGACCGCACUUUCAUGCCCGCCAUAAAGUGCGGUUAUUUUUAUUCGUAAAUCAGCAUAGCUGAUUUACUCACCCCAUAGGGGUCGUUGGCAAAACCAACGCUCAAAACGCC .............(((((..((((((((((.(((.....)))))))))))))..)))))....((((((((((...))))))))))..(((((...)))))((((((.....))))))........... (-45.00) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 725 45 2 227 185 aact:AA00200|5end_thymidylate_synthase_138892..139122_POSITIVE 561 50 3 231 182 aact:AA00988|5end_conserved_hypothetical_protein_690898..691128_POSITIVE 553 47 2 132 86 aact:AA01098|5end_bis(5'-nucleosyl)-tetraphosphatase_757699..757929_POSITIVE 501 42 1 190 149 aact:AA02108|5end_2-acylglycerophosphoethanolamine_acyltransferase;_acyl-acyl_carrier_protein_synthetase_1433393..1433623_POSITIVE 495 114 71 156 113 aact:AA00511|5end_nicotinamide_mononucleotide_transporter_353884..354114_POSITIVE 487 114 76 199 159 aact:AA02486|5end_topoisomerase_IV,_subunit_B_1724337..1724567_POSITIVE 485 42 6 38 1 aact:AA02106|5end_hypothetical_protein_1433241..1433471_POSITIVE 477 120 72 161 110 aact:AA02980|5end_conserved_hypothetical_protein_2083305..2083535_POSITIVE 467 50 2 164 116 aact:AA01633|5end_probable_ferredoxin-like_protein_1104008..1104238_POSITIVE 463 120 78 114 69 aact:AA01986|5end_pyruvate_dehydrogenase_complex_E2_1348753..1348983_POSITIVE 454 120 71 155 105 aact:AA00686|5end_hypothetical_protein_468852..469082_POSITIVE 451 111 71 148 106 aact:AA00613|5end_lipid-A-disaccharide_synthase_418713..418943_POSITIVE 445 110 66 149 105 aact:AA01692|5end_hexulose-6-phosphate_synthase_1149178..1149408_POSITIVE 433 111 71 147 106 aact:AA01704|5end_tyrosine-specific_transport_protein_1156170..1156400_POSITIVE 429 120 78 68 11 aact:AA00595|5end_hypothetical_protein_407194..407424_POSITIVE 428 114 71 141 96 aact:AA00047|5end_formate_dependent_nitrite_reductase,_cytochrome_c552_36753..36983_POSITIVE 427 114 78 156 117 aact:AA01436|5end_fructose-bisphosphate_aldolase_class_II_962981..963211_POSITIVE 426 114 71 163 108 aact:AA02716|5end_peptidase_T_1899789..1900019_POSITIVE 423 45 5 193 153 aact:AA01090|5end_leucyl-tRNA_synthetase,_leucyl-tRNA_ligase_753548..753778_POSITIVE 420 120 74 174 123 aact:AA00419|5end_conserved_hypothetical_protein_(possible_phosphatidylethanolamine-binding_protein)_284337..284567_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 495 114 71 75 32 aact:AA00508|3end_SAM-dependent_methyltransferase_353883..354033_POSITIVE 477 120 72 84 33 aact:AA02978|3end_sufI_protein_precursor_homolog_2083308..2083458_POSITIVE 463 120 78 82 37 aact:AA01985|3end_pyruvate_dehydrogenase,_E1_component_1348801..1348951_POSITIVE 454 120 71 84 34 aact:AA00684|3end_adenylosuccinate_synthase_468861..469011_POSITIVE 451 111 71 60 18 aact:AA00612|3end_acyl-(acyl-carrier-protein)-UDP-N-acetylglucosami_ne_418705..418855_POSITIVE 443 118 71 74 32 aact:AA00223|3end_catalase_(hydroperoxidase;_iron_heme_axial_ligand)_155808..155958_POSITIVE 440 47 10 38 1 aact:AA01097|3end_conserved_hypothetical_protein_757685..757835_POSITIVE 433 111 71 58 17 aact:AA01703|3end_L-ribulose-phosphate_4-epimerase_1156161..1156311_POSITIVE 429 120 78 80 23 aact:AA00592|3end_conserved_hypothetical_protein_(membrane/transport_protein)_407286..407436_POSITIVE 428 114 71 64 19 aact:AA00046|3end_formate_dependent_nitrite_reductase,_cytochrome-c_type_protein_36756..36906_POSITIVE 427 114 78 116 77 aact:AA01434|3end_conserved_hypothetical_protein_(possible_o-antigen_ligase)_963021..963171_POSITIVE 426 114 71 81 26 aact:AA02715|3end_paraquat-inducible_protein_pqiB_homolog_1899787..1899937_POSITIVE 423 45 5 48 8 aact:AA01088|3end_rare_lipoprotein_B_precursor_753483..753633_POSITIVE 420 120 74 65 14 aact:AA00417|3end_outer_membrane_lipoprotein_precursor_(probable_D-methionine-binding_lipoprotein)_284308..284458_POSITIVE 416 43 5 127 89 aact:AA02167|3end_hypothetical_protein_1483474..1483624_POSITIVE 406 120 71 63 12 aact:AA02758|3end_3-phosphoshikimate_1-carboxyvinyltransferase_1933150..1933300_POSITIVE 403 113 78 51 22 aact:AA02834|3end_colicin_transport_protein_1991768..1991918_POSITIVE 401 114 71 65 16 aact:AA02409|3end_DNA_ligase_1655404..1655554_POSITIVE 397 49 4 50 4 aact:AA02663|3end_DNA_ligase_1854351..1854501_POSITIVE 396 109 66 60 22 aact:AA00453|3end_phosphoglyceromutase_318009..318159_POSITIVE