Origin IGS: ctgcggcgcctccgatggcggcagcaacgcaaccttgtaataacattgcgctaccgaaaattaataccagtttttttaatggacttgttaacatggtcatctcctttatgtgtaacaaccgggcgctagtgtggcgtgaaacgtccgattttgtcaagtta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taacttgacaaaatcggacgtttcacgccacactagcgcccggttgttacacataaaggagatgaccatgttaacaagtccattaaaaaaactggtattaattttcggtagcgcaatgttattacaaggttgcgttgctgccgccatcggaggcgccgcag Mask Tandem Repeat Region ================================================ ctgcggcgcctccgatggcggcagcaacgcaaccttgtaataacattgcgctaccgaaaattaataccagtttttttaatggacttgttaacatggtcatctcctttatgtgtaacaaccgggcgctagtgtggcgtgaaacgtccgattttgtcaagtta Find is-nt database================================================ Query_seq: AA02014:AA02015|AA02014:AA02015:probable hemolysin:phosphoheptose isomerase:->->:1371038..1371198 161 ctgcggcgcctccgatggcggcagcaacgcaaccttgtaataacattgcgctaccgaaaattaataccagtttttttaatggacttgttaacatggtcatctcctttatgtgtaacaaccgggcgctagtgtggcgtgaaacgtccgattttgtcaagtta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA02014:AA02015|AA02014:AA02015:probable hemolysin:phosphoheptose isomerase:->->:1371038..1371198 161 ctgcggcgcctccgatggcggcagcaacgcaaccttgtaataacattgcgctaccgaaaattaataccagtttttttaatggacttgttaacatggtcatctcctttatgtgtaacaaccgggcgctagtgtggcgtgaaacgtccgattttgtcaagtta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA02014:AA02015|AA02014:AA02015:probable hemolysin:phosphoheptose isomerase:->->:1371038..1371198 161 ctgcggcgcctccgatggcggcagcaacgcaaccttgtaataacattgcgctaccgaaaattaataccagtttttttaatggacttgttaacatggtcatctcctttatgtgtaacaaccgggcgctagtgtggcgtgaaacgtccgattttgtcaagtta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ctgcggcgcctccgatggcggcagcaacgcaaccttgtaataacattgcgctaccgaaaattaataccagtttttttaatggacttgttaacatggtcatctcctttatgtgtaacaaccgggcgctagtgtggcgtgaaacgtccgattttgtcaagtta Predict ORF larger than 30AA ================================================ Protein_Len: 42 Strand: + Start: 1 End: 126 M R R L R W R Q Q R N L V I T L R Y R K L I P V F L M D L L T W S S P L C V T T G R ................................... Protein_Len: 49 Strand: + Start: 15 End: 161 .............. M A A A T Q P C N N I A L P K I N T S F F N G L V N M V I S F M C N N R A L V W R E T S D F V K L Protein_Len: 52 Strand: - Start: 2 End: 157 . A A G G I A A A V C G Q L L M A S G F I L V L K K L P S T L M T M E K I H L L R A S T H R S V D S K T M .... ctgcggcgcctccgatggcggcagcaacgcaaccttgtaataacattgcgctaccgaaaattaataccagtttttttaatggacttgttaacatggtcatctcctttatgtgtaacaaccgggcgctagtgtggcgtgaaacgtccgattttgtcaagtta 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================================================ ctgcggcgcctccgatggcggcagcaacgcaaccttgtaataacattgcgctaccgaaaattaataccagtttttttaatggacttgttaacatggtcatctcctttatgtgtaacaaccgggcgctagtgtggcgtgaaacgtccgattttgtcaagtta Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 45 HP_score: -2.7 Tail_Score: -3.14564 Start: 28 End: 50 Full_Region: attaattttcggtag cgcaatgtt attac aaggttgcg ttgctgccgccatcg ...........................cgcaatgttattacaaggttgcg............................................................................................................... Find igs database================================================ Query_seq: AA02014:AA02015|AA02014:AA02015:probable hemolysin:phosphoheptose isomerase:->->:1371038..1371198 161 ctgcggcgcctccgatggcggcagcaacgcaaccttgtaataacattgcgctaccgaaaattaataccagtttttttaatggacttgttaacatggtcatctcctttatgtgtaacaaccgggcgctagtgtggcgtgaaacgtccgattttgtcaagtta Intra-Species Hit: Count: 1 Min: 1 Max: 161 Len: 161 Subject: aact_AA02014_AA02015|probable hemolysin:phosphoheptose isomerase|POSITIVE:POSITIVE|[1371038,1371198]|161 HSP 1 e-value: 5.0E-74 bit: 278.0 Len: 161 Query Start:1 Query End:161 Subject Strand: POSITIVE Subject Start: 1 Subject End: 161 ctgcggcgcctccgatggcggcagcaacgcaaccttgtaataacattgcgctaccgaaaattaataccagnnnnnnnaatggacttgttaacatggtcatctcctttatgtgtaacaaccgggcgctagtgtggcgtgaaacgtccgattttgtcaagtta ctgcggcgcctccgatggcggcagcaacgcaaccttgtaataacattgcgctaccgaaaattaataccagtttttttaatggacttgttaacatggtcatctcctttatgtgtaacaaccgggcgctagtgtggcgtgaaacgtccgattttgtcaagtta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CUGCGGCGCCUCCGAUGGCGGCAGCAACGCAACCUUGUAAUAACAUUGCGCUACCGAAAAUUAAUACCAGUUUUUUUAAUGGACUUGUUAACAUGGUCAUCUCCUUUAUGUGUAACAACCGGGCGCUAGUGUGGCGUGAAACGUCCGAUUUUGUCAAGUUA .((((.((((......)))).).))).......(((((((..(((((((((..(((..........(((..........)))..((((((((((((.........)))))).)))))).))))))).)))))((((.....)))).....))).))))... (-38.90) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAACUUGACAAAAUCGGACGUUUCACGCCACACUAGCGCCCGGUUGUUACACAUAAAGGAGAUGACCAUGUUAACAAGUCCAUUAAAAAAACUGGUAUUAAUUUUCGGUAGCGCAAUGUUAUUACAAGGUUGCGUUGCUGCCGCCAUCGGAGGCGCCGCAG .....(((((..(((((.((((............)))).))))))))))........((((((.((((.(((.................)))))))....)))))).((((((((((.((.....)).)))))))))).((((((......))))..)).. (-39.93) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 444 44 1 215 154 aact:AA01056|5end_conserved_hypothetical_protein_733867..734097_POSITIVE 406 32 3 41 8 aact:AA00694|5end_dCTP_deaminase_(deoxycytidine_triphosphate_deaminas)_474439..474669_POSITIVE 406 148 104 188 137 aact:AA00339|5end_hypothetical_protein_228687..228917_POSITIVE 399 147 101 152 105 aact:AA00925|5end_hypothetical_protein_635364..635594_POSITIVE 399 147 101 49 2 aact:AA00924|5end_hypothetical_protein_635261..635491_POSITIVE 375 145 110 55 21 aact:AA01547|5end_deoxyribose-phosphate_aldolase_1036271..1036501_POSITIVE 374 45 4 69 25 aact:AA01408|5end_conserved_hypothetical_protein_950191..950421_POSITIVE 369 50 1 54 16 aact:AA02334|5end_outer_membrane_protein_P1_1595307..1595537_POSITIVE 369 38 1 193 149 aact:AA00796|5end_iron(III)_dicitrate_transport_system_permease_protein_545686..545916_POSITIVE 365 34 7 228 189 aact:AA01417|5end_probable_4-diphosphocytidyl-2C-methyl-D-erthyritol_synthase_(MEP_cytidyltransferase)_(MCT)_953256..953486_POSITIVE 361 57 12 101 42 aact:AA01228|5end_50S_ribosomal_protein_L14_838897..839127_POSITIVE 359 49 1 197 132 aact:AA02736|5end_conserved_hypothetical_protein_1917350..1917580_POSITIVE 358 50 4 77 25 aact:AA00652|5end_arginyl-tRNA_synthetase_(arginine--tRNA_ligase)_445718..445948_POSITIVE 358 50 4 81 31 aact:AA00632|5end_inner_membrane_protein_ImpA_434127..434357_POSITIVE 356 135 96 124 87 aact:AA01681|5end_molybdate-binding_periplasmic_protein_1135159..1135389_POSITIVE 355 48 3 74 35 aact:AA02485|5end_outer_membrane_protein_100_1722950..1723180_POSITIVE 352 49 2 195 141 aact:AA00381|5end_ornithine_carbamoyltransferase_257470..257700_POSITIVE 351 44 4 69 26 aact:AA00970|5end_uroporphyrinogen_decarboxylase_(uroporphyrinogen_III_decarboxylase)_676126..676356_POSITIVE 351 49 8 65 26 aact:AA00269|5end_3-oxoacyl-(acyl-carrier-protein)_reductase/short-chain_alcohol_dehydrogenase_188608..188838_POSITIVE 349 50 1 54 5 aact:AA01801|5end_malate_dehydrogenase_1213358..1213588_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 406 32 3 37 4 aact:AA00692|3end_conserved_hypothetical_protein_474515..474665_POSITIVE 374 45 4 49 5 aact:AA01407|3end_outer_membrane_antigenic_lipoprotein_b_precursor_950251..950401_POSITIVE 356 135 96 121 84 aact:AA01679|3end_aspartate-semialdehyde_dehydrogenase;_PTS_system_enzyme_II_A_component_1135236..1135386_POSITIVE 351 44 4 69 26 aact:AA00969|3end_conserved_hypothetical_protein_(possible_NADH_pyrophosphatase)_676206..676356_POSITIVE 349 50 1 74 25 aact:AA01800|3end_hypothetical_protein_1213458..1213608_POSITIVE 349 34 2 95 60 aact:AA01573|3end_peptide_transport_periplasmic_protein_1061454..1061604_POSITIVE 346 49 3 122 73 aact:AA00254|3end_penicillin-binding_protein_5_178774..178924_POSITIVE 341 29 2 147 126 aact:AA00552|3end_periplasmic_nitrate_reductase_precursor_379894..380044_POSITIVE 338 49 1 74 16 aact:AA01325|3end_formamidopyrimidine-DNA_glycosylase_895639..895789_POSITIVE 337 149 105 124 77 aact:AA00523|3end_conserved_hypothetical_protein_358929..359079_POSITIVE 336 34 2 147 111 aact:AA01753|3end_conserved_hypothetical_protein_1185902..1186052_POSITIVE 336 140 92 137 74 aact:AA00713|3end_chaperone_protein_hscA,_heat_shock_cognate_66_490697..490847_POSITIVE 334 38 1 139 94 aact:AA00977|3end_transcriptional_regulator_(LysR_family)_683334..683484_POSITIVE 333 50 1 61 14 aact:AA02366|3end_hypothetical_protein_1623252..1623402_POSITIVE 332 158 120 100 54 aact:AA02357|3end_bifunctional_protein:_aspartokinase_I;_homoserine_dehydrogenaseI_1617192..1617342_POSITIVE 329 49 3 122 56 aact:AA01875|3end_PTS_system,_glucose-specific_enzyme_II,_A_component_1263506..1263656_POSITIVE 329 50 2 125 86 aact:AA00592|3end_conserved_hypothetical_protein_(membrane/transport_protein)_407286..407436_POSITIVE 326 49 2 76 15 aact:AA02990|3end_beta_hexosaminadase_2090596..2090746_POSITIVE 325 58 12 50 4 aact:AA01519.1|3end_conserved_hypothetical_protein_1022920..1023070_POSITIVE 323 155 121 69 30 aact:AA01463|3end_probable_transport_protein_984200..984350_POSITIVE