Origin IGS: gtcattttcctccacaatgagcctttcgcccgtccatgtaaagcggtgctcccaccggcgacctataagtatagcttatacccctttcaaaaatatatatttcttttctgaaaaaatttttgctaatttcagctcaccaagtccgacgaattcacacataaaaaggagggaaaaatagcattacttacaacgctcccctttttaatcgatttctgcatggcagtttacatctcgacttcattataaattttattaaacattcggagggtcatt .........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 aatgaccctccgaatgtttaataaaatttataatgaagtcgagatgtaaactgccatgcagaaatcgattaaaaaggggagcgttgtaagtaatgctatttttccctcctttttatgtgtgaattcgtcggacttggtgagctgaaattagcaaaaattttttcagaaaagaaatatatatttttgaaaggggtataagctatacttataggtcgccggtgggagcaccgctttacatggacgggcgaaaggctcattgtggaggaaaatgac Mask Tandem Repeat Region ================================================ gtcattttcctccacaatgagcctttcgcccgtccatgtaaagcggtgctcccaccggcgacctataagtatagcttatacccctttcaaaaatatatatttcttttctgaaaaaatttttgctaatttcagctcaccaagtccgacgaattcacacataaaaaggagggaaaaatagcattacttacaacgctcccctttttaatcgatttctgcatggcagtttacatctcgacttcattataaattttattaaacattcggagggtcatt Find is-nt database================================================ Query_seq: AA00371:AA00372|AA00371:AA00372:transcriptional regulator:acetate CoA-transferase (alpha subunit):->->:250215..250487 273 gtcattttcctccacaatgagcctttcgcccgtccatgtaaagcggtgctcccaccggcgacctataagtatagcttatacccctttcaaaaatatatatttcttttctgaaaaaatttttgctaatttcagctcaccaagtccgacgaattcacacataaaaaggagggaaaaatagcattacttacaacgctcccctttttaatcgatttctgcatggcagtttacatctcgacttcattataaattttattaaacattcggagggtcatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA00371:AA00372|AA00371:AA00372:transcriptional regulator:acetate CoA-transferase (alpha subunit):->->:250215..250487 273 gtcattttcctccacaatgagcctttcgcccgtccatgtaaagcggtgctcccaccggcgacctataagtatagcttatacccctttcaaaaatatatatttcttttctgaaaaaatttttgctaatttcagctcaccaagtccgacgaattcacacataaaaaggagggaaaaatagcattacttacaacgctcccctttttaatcgatttctgcatggcagtttacatctcgacttcattataaattttattaaacattcggagggtcatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA00371:AA00372|AA00371:AA00372:transcriptional regulator:acetate CoA-transferase (alpha subunit):->->:250215..250487 273 gtcattttcctccacaatgagcctttcgcccgtccatgtaaagcggtgctcccaccggcgacctataagtatagcttatacccctttcaaaaatatatatttcttttctgaaaaaatttttgctaatttcagctcaccaagtccgacgaattcacacataaaaaggagggaaaaatagcattacttacaacgctcccctttttaatcgatttctgcatggcagtttacatctcgacttcattataaattttattaaacattcggagggtcatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gtcattttcctccacaatgagcctttcgcccgtccatgtaaagcggtgctcccaccggcgacctataagtatagcttatacccctttcaaaaatatatatttcttttctgaaaaaatttttgctaatttcagctcaccaagtccgacgaattcacacataaaaaggagggaaaaatagcattacttacaacgctcccctttttaatcgatttctgcatggcagtttacatctcgacttcattataaattttattaaacattcggagggtcatt Predict ORF larger than 30AA ================================================ Protein_Len: 35 Strand: + Start: 4 End: 108 ... M F L H N E P F A R P C K A V L P P A T Y K Y S L Y P F Q K Y I F L F ..................................................................................................................................................................... Protein_Len: 53 Strand: + Start: 17 End: 175 ................ M S L S P V H V K R C S H R R P I S I A Y T P F K N I Y F F S E K I F A N F S S P S P T N S H I K R R E K .................................................................................................. Protein_Len: 31 Strand: + Start: 180 End: 272 ................................................................................................................................................................................... M T Y N A P L F N R F L H G S L H L D F I I N F I K H S E G H . Protein_Len: 42 Strand: - Start: 5 End: 127 .... * K G G C H A K R G D M Y L P A G V P S R Y T Y S I G R E F I Y I E K R F F N K S M .................................................................................................................................................. gtcattttcctccacaatgagcctttcgcccgtccatgtaaagcggtgctcccaccggcgacctataagtatagcttatacccctttcaaaaatatatatttcttttctgaaaaaatttttgctaatttcagctcaccaagtccgacgaattcacacataaaaaggagggaaaaatagcattacttacaacgctcccctttttaatcgatttctgcatggcagtttacatctcgacttcattataaattttattaaacattcggagggtcatt 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================================================ gtcattttcctccacaatgagcctttcgcccgtccatgtaaagcggtgctcccaccggcgacctataagtatagcttatacccctttcaaaaatatatatttcttttctgaaaaaatttttgctaatttcagctcaccaagtccgacgaattcacacataaaaaggagggaaaaatagcattacttacaacgctcccctttttaatcgatttctgcatggcagtttacatctcgacttcattataaattttattaaacattcggagggtcatt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA00371:AA00372|AA00371:AA00372:transcriptional regulator:acetate CoA-transferase (alpha subunit):->->:250215..250487 273 gtcattttcctccacaatgagcctttcgcccgtccatgtaaagcggtgctcccaccggcgacctataagtatagcttatacccctttcaaaaatatatatttcttttctgaaaaaatttttgctaatttcagctcaccaagtccgacgaattcacacataaaaaggagggaaaaatagcattacttacaacgctcccctttttaatcgatttctgcatggcagtttacatctcgacttcattataaattttattaaacattcggagggtcatt Intra-Species Hit: Count: 1 Min: 1 Max: 273 Len: 273 Subject: aact_AA00371_AA00372|transcriptional regulator:acetate CoA-transferase (alpha subunit)|POSITIVE:POSITIVE|[250215,250487]|273 HSP 1 e-value: 1.0E-153 bit: 541.0 Len: 273 Query Start:1 Query End:273 Subject Strand: POSITIVE Subject Start: 1 Subject End: 273 gtcattttcctccacaatgagcctttcgcccgtccatgtaaagcggtgctcccaccggcgacctataagtatagcttatacccctttcaaaaatatatatttcttttctgaaaaaatttttgctaatttcagctcaccaagtccgacgaattcacacataaaaaggagggaaaaatagcattacttacaacgctcccctttttaatcgatttctgcatggcagtttacatctcgacttcattataaattttattaaacattcggagggtcatt gtcattttcctccacaatgagcctttcgcccgtccatgtaaagcggtgctcccaccggcgacctataagtatagcttatacccctttcaaaaatatatatttcttttctgaaaaaatttttgctaatttcagctcaccaagtccgacgaattcacacataaaaaggagggaaaaatagcattacttacaacgctcccctttttaatcgatttctgcatggcagtttacatctcgacttcattataaattttattaaacattcggagggtcatt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GUCAUUUUCCUCCACAAUGAGCCUUUCGCCCGUCCAUGUAAAGCGGUGCUCCCACCGGCGACCUAUAAGUAUAGCUUAUACCCCUUUCAAAAAUAUAUAUUUCUUUUCUGAAAAAAUUUUUGCUAAUUUCAGCUCACCAAGUCCGACGAAUUCACACAUAAAAAGGAGGGAAAAAUAGCAUUACUUACAACGCUCCCCUUUUUAAUCGAUUUCUGCAUGGCAGUUUACAUCUCGACUUCAUUAUAAAUUUUAUUAAACAUUCGGAGGGUCAUU .......((((((....(((((...(((((.((....(((......)))....)).)))))..((((((.....)))))).......(((((((.....((((......))))..))))))).........)))))..(((((.((.((.........((((((((.(((......((.....)).......))).))))))))........((((...))))......)))))))))........................))))))..... (-50.02) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAUGACCCUCCGAAUGUUUAAUAAAAUUUAUAAUGAAGUCGAGAUGUAAACUGCCAUGCAGAAAUCGAUUAAAAAGGGGAGCGUUGUAAGUAAUGCUAUUUUUCCCUCCUUUUUAUGUGUGAAUUCGUCGGACUUGGUGAGCUGAAAUUAGCAAAAAUUUUUUCAGAAAAGAAAUAUAUAUUUUUGAAAGGGGUAUAAGCUAUACUUAUAGGUCGCCGGUGGGAGCACCGCUUUACAUGGACGGGCGAAAGGCUCAUUGUGGAGGAAAAUGAC ......((((((.......................(((((..((((....((((...))))...(((..(((((((((((((((((....)))))))........))))))))))....)))...)))).)))))((((((((.....((((.....((((((((((((...........))))))))))))......))))..........((((((((((.....)))))...........)))))..)))))))).))))))........ (-69.00) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 461 59 18 112 68 aact:AA00329|5end_molybdopterin-guanine_dinucleotide_biosynthesis_protein_222737..222967_POSITIVE 447 60 15 184 130 aact:AA02731|5end_outer_membrane_lipoprotein_carrier_precursor_1911498..1911728_POSITIVE 397 69 22 219 156 aact:AA00200|5end_thymidylate_synthase_138892..139122_POSITIVE 390 60 21 117 79 aact:AA00198|5end_conserved_hypothetical_protein_(Cytosine_deaminase-related_enzyme)_138039..138269_POSITIVE 370 59 13 223 170 aact:AA02947|5end_riboflavin_biosynthesis_protein_2060871..2061101_POSITIVE 369 64 23 201 155 aact:AA00386|5end_aspartate--ammonia_ligase_(asparagine_synthetase_A)_261150..261380_POSITIVE 366 62 26 60 13 aact:AA01626|5end_N_utilization_substance_protein_B_1100444..1100674_POSITIVE 363 64 21 183 125 aact:AA00796|5end_iron(III)_dicitrate_transport_system_permease_protein_545686..545916_POSITIVE 363 60 11 172 119 aact:AA00533|5end_conserved_hypothetical_protein_365323..365553_POSITIVE 352 59 22 37 5 aact:AA02084|5end_conserved_hypothetical_protein_1417843..1418073_POSITIVE 351 60 18 214 151 aact:AA01759|5end_hydrogenase_isoenzymes_formation_protein_1188675..1188905_POSITIVE 350 47 7 67 22 aact:AA02250|5end_possible_cytochrome_c-type_protein_1530125..1530355_POSITIVE 350 63 27 171 131 aact:AA00507|5end_hypothetical_protein_352996..353226_POSITIVE 347 60 11 49 2 aact:AA00970|5end_uroporphyrinogen_decarboxylase_(uroporphyrinogen_III_decarboxylase)_676126..676356_POSITIVE 346 67 28 163 125 aact:AA00894|5end_selenium_transferase_(Cysteinyl-tRNA(Sec)_selenium_transferase)_619879..620109_POSITIVE 345 63 21 52 3 aact:AA01421|5end_phosphoglycolate_phosphatase_955055..955285_POSITIVE 344 57 17 85 38 aact:AA01515|5end_SlyX_family_protein_1020682..1020912_POSITIVE 344 60 11 91 52 aact:AA00512|5end_conserved_hypothetical_protein_354411..354641_POSITIVE 343 60 11 117 60 aact:AA01724|5end_valyl-tRNA_synthetase_1164446..1164676_POSITIVE 342 65 21 203 153 aact:AA02696|5end_formate_hydrogenlyase_maturation_protein_1879476..1879706_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 381 58 11 149 87 aact:AA00075|3end_conserved_hypothetical_protein_55636..55786_POSITIVE 370 59 13 142 89 aact:AA02946|3end_virulence_factor_protein_2060870..2061020_POSITIVE 369 64 23 139 93 aact:AA00384|3end_conserved_hypothetical_protein_(possible_nitrogen_fixation_protein)_261168..261318_POSITIVE 366 62 26 50 3 aact:AA01625|3end_riboflavin_synthase,_beta_chain_1100514..1100664_POSITIVE 350 60 11 151 101 aact:AA00531|3end_DNA_polymerase_I_365385..365535_POSITIVE 347 60 11 49 2 aact:AA00969|3end_conserved_hypothetical_protein_(possible_NADH_pyrophosphatase)_676206..676356_POSITIVE 344 60 11 82 43 aact:AA00511|3end_nicotinamide_mononucleotide_transporter_354482..354632_POSITIVE 342 65 21 65 15 aact:AA02695|3end_hydrogenase-3_component_G_1879418..1879568_POSITIVE 338 49 2 108 56 aact:AA01626|3end_N_utilization_substance_protein_B_1100946..1101096_POSITIVE 327 65 21 49 4 aact:AA02366|3end_hypothetical_protein_1623252..1623402_POSITIVE 324 63 25 138 103 aact:AA01221|3end_transformation_locus_protein_orfG_homolog_834239..834389_POSITIVE 324 58 22 103 66 aact:AA00041|3end_cytochrome_c-type_biogenesis_protein_33817..33967_POSITIVE 323 49 1 135 84 aact:AA02144|3end_iron_(III)_ABC_transporter,_permease_protein_1468679..1468829_POSITIVE 321 63 21 53 5 aact:AA01054|3end_conserved_hypothetical_protein_733940..734090_POSITIVE 320 59 21 144 106 aact:AA01284|3end_heat_shock_protein_(hsp60)_870294..870444_POSITIVE 317 60 20 80 36 aact:AA00530|3end_hypothetical_protein_362668..362818_POSITIVE 316 61 28 113 73 aact:AA01018|3end_conserved_hypothetical_protein_(possible_transcriptional_regulator)_712300..712450_POSITIVE 314 63 25 46 3 aact:AA01419|3end_D-ribulose-phosphate-3_epimerase_955129..955279_POSITIVE 313 60 12 145 83 aact:AA01731|3end_multidrug_resistance_protein_B_1170675..1170825_POSITIVE 312 47 7 150 100 aact:AA02898|3end_oligopeptide_transport_ATP-binding_protein_2030143..2030293_POSITIVE