Origin IGS: tgattccgtcgaataaaacaatgggtctataacgatagacccattttgttgatataaaaaacgcttaaaaaaacgaccgcactttttcgttcccccaacgcta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tagcgttgggggaacgaaaaagtgcggtcgtttttttaagcgttttttatatcaacaaaatgggtctatcgttatagacccattgttttattcgacggaatca Mask Tandem Repeat Region ================================================ tgattccgtcgaataaaacaatgggtctataacgatagacccattttgttgatataaaaaacgcttaaaaaaacgaccgcactttttcgttcccccaacgcta Find is-nt database================================================ Query_seq: AA00377:AA00378|AA00377:AA00378:acetyl-CoA acetyltransferase (Beta-ketothiolase,3-ketoacyl-CoA thiolase):leucine-responsive regulatory protein (transcription regulator):->->:254361..254463 103 tgattccgtcgaataaaacaatgggtctataacgatagacccattttgttgatataaaaaacgcttaaaaaaacgaccgcactttttcgttcccccaacgcta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA00377:AA00378|AA00377:AA00378:acetyl-CoA acetyltransferase (Beta-ketothiolase,3-ketoacyl-CoA thiolase):leucine-responsive regulatory protein (transcription regulator):->->:254361..254463 103 tgattccgtcgaataaaacaatgggtctataacgatagacccattttgttgatataaaaaacgcttaaaaaaacgaccgcactttttcgttcccccaacgcta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA00377:AA00378|AA00377:AA00378:acetyl-CoA acetyltransferase (Beta-ketothiolase,3-ketoacyl-CoA thiolase):leucine-responsive regulatory protein (transcription regulator):->->:254361..254463 103 tgattccgtcgaataaaacaatgggtctataacgatagacccattttgttgatataaaaaacgcttaaaaaaacgaccgcactttttcgttcccccaacgcta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgattccgtcgaataaaacaatgggtctataacgatagacccattttgttgatataaaaaacgcttaaaaaaacgaccgcactttttcgttcccccaacgcta Predict ORF larger than 30AA ================================================ tgattccgtcgaataaaacaatgggtctataacgatagacccattttgttgatataaaaaacgcttaaaaaaacgaccgcactttttcgttcccccaacgcta 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================================================ tgattccgtcgaataaaacaatgggtctataacgatagacccattttgttgatataaaaaacgcttaaaaaaacgaccgcactttttcgttcccccaacgcta Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 100 HP_score: -10.0 Tail_Score: -4.63218 Start: 19 End: 46 Full_Region: ttttttatatcaaca aaatgggtctat cgtt atagacccattg ttttattcgacggaa ..................aaatgggtctatcgttatagacccattg......................................................... TransTerm Strand: - Conf: 100 HP_score: -11.7 Tail_Score: -4.43307 Start: 22 End: 43 Full_Region: tttatatcaacaaaa tgggtctat cgtt atagaccca ttgttttattcgacg .....................tgggtctatcgttatagaccca............................................................ Find igs database================================================ Query_seq: AA00377:AA00378|AA00377:AA00378:acetyl-CoA acetyltransferase (Beta-ketothiolase,3-ketoacyl-CoA thiolase):leucine-responsive regulatory protein (transcription regulator):->->:254361..254463 103 tgattccgtcgaataaaacaatgggtctataacgatagacccattttgttgatataaaaaacgcttaaaaaaacgaccgcactttttcgttcccccaacgcta Intra-Species Hit: Count: 1 Min: 1 Max: 103 Len: 103 Subject: aact_AA00377_AA00378|acetyl-CoA acetyltransferase (Beta-ketothiolase,3-ketoacyl-CoA thiolase):leucine-responsive regulatory protein (transcription regulator)|POSITIVE:POSITIVE|[254361,254463]|103 HSP 1 e-value: 1.0E-39 bit: 163.0 Len: 103 Query Start:1 Query End:103 Subject Strand: POSITIVE Subject Start: 1 Subject End: 103 tgattccgtcgaataaaacaatgggtctataacgatagacccattttgttgatataaaaaacgcttnnnnnnncgaccgcactttttcgttcccccaacgcta tgattccgtcgaataaaacaatgggtctataacgatagacccattttgttgatataaaaaacgcttaaaaaaacgaccgcactttttcgttcccccaacgcta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAUUCCGUCGAAUAAAACAAUGGGUCUAUAACGAUAGACCCAUUUUGUUGAUAUAAAAAACGCUUAAAAAAACGACCGCACUUUUUCGUUCCCCCAACGCUA .......((((........(((((((((((....)))))))))))..(((.........)))...........))))..........((((.....))))... (-20.10) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGCGUUGGGGGAACGAAAAAGUGCGGUCGUUUUUUUAAGCGUUUUUUAUAUCAACAAAAUGGGUCUAUCGUUAUAGACCCAUUGUUUUAUUCGACGGAAUCA ...((((((((((((.(((((((((..............)))))))))..........(((((((((((....)))))))))))))))).)))))))...... (-26.74) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 447 100 55 194 147 aact:AA02030|5end_threonyl-tRNA_synthetase_1382171..1382401_POSITIVE 417 98 55 229 184 aact:AA02570|5end_conserved_hypothetical_protein_1789150..1789380_POSITIVE 417 98 55 91 46 aact:AA02569|5end_hypothetical_protein_1789012..1789242_POSITIVE 414 88 47 125 84 aact:AA00792|5end_conserved_hypothetical_protein_543142..543372_POSITIVE 394 89 45 158 114 aact:AA02409|5end_DNA_ligase_1653315..1653545_POSITIVE 391 85 44 120 79 aact:AA02106|5end_hypothetical_protein_1433241..1433471_POSITIVE 381 87 44 124 83 aact:AA02937|5end_conserved_hypothetical_protein_2056379..2056609_POSITIVE 380 94 55 227 191 aact:AA01424|5end_threonine_deaminase_(dehydratase)_957740..957970_POSITIVE 372 92 55 128 92 aact:AA01603|5end_oligopeptidase_A_1082898..1083128_POSITIVE 371 89 57 79 47 aact:AA02965|5end_hypothetical_protein_2074069..2074299_POSITIVE 370 85 50 124 92 aact:AA02716|5end_peptidase_T_1899789..1900019_POSITIVE 367 94 58 146 110 aact:AA02410|5end_cell_division_protein_1655429..1655659_POSITIVE 364 86 41 95 45 aact:AA00733|5end_hypothetical_protein_502335..502565_POSITIVE 363 98 57 135 93 aact:AA01291|5end_excinuclease_ABC_subunit_A_872829..873059_POSITIVE 354 100 57 174 123 aact:AA00386|5end_aspartate--ammonia_ligase_(asparagine_synthetase_A)_261150..261380_POSITIVE 353 86 57 230 201 aact:AA02966|5end_conserved_hypothetical_protein_2074223..2074453_POSITIVE 348 99 57 206 163 aact:AA01635|5end_ribonucleoside_diphosphate_reductase,_beta_chain_1104615..1104845_POSITIVE 346 89 51 127 87 aact:AA00613|5end_lipid-A-disaccharide_synthase_418713..418943_POSITIVE 344 85 41 80 38 aact:AA01969|5end_hypothetical_protein_1331969..1332199_POSITIVE 340 86 55 124 93 aact:AA01994|5end_chorismate_mutase;_prephenate_dehydrogenase_1354959..1355189_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 426 92 55 149 111 aact:AA02029|3end_hypothetical_protein_1382215..1382365_POSITIVE 411 100 55 47 4 aact:AA00790|3end_recombination_DNA_repair_protein_543134..543284_POSITIVE 391 85 44 89 48 aact:AA02105|3end_killing_protein_1433290..1433440_POSITIVE 385 96 55 93 51 aact:AA01423|3end_cell_division_protein_X,_ABC_system_permease_957680..957830_POSITIVE 378 100 57 140 101 aact:AA01259|3end_protoporphyrinogen_oxidase_854943..855093_POSITIVE 371 89 57 58 26 aact:AA02964|3end_opacity_associated_protein_A_2074128..2074278_POSITIVE 370 85 50 42 10 aact:AA02715|3end_paraquat-inducible_protein_pqiB_homolog_1899787..1899937_POSITIVE 367 94 58 41 5 aact:AA02409|3end_DNA_ligase_1655404..1655554_POSITIVE 364 87 51 38 3 aact:AA02936|3end_lipoprotein_E_precursor;_outer_membrane_protein_P4_precursor;_acid_phosphatase_2056373..2056523_POSITIVE 364 86 41 107 57 aact:AA00732|3end_citrate_lyase_ligase_502427..502577_POSITIVE 363 98 57 74 32 aact:AA01289|3end_hypothetical_protein_872848..872998_POSITIVE 358 100 51 95 41 aact:AA01611|3end_anthranilate_synthase_component_II_1089619..1089769_POSITIVE 354 100 57 112 61 aact:AA00384|3end_conserved_hypothetical_protein_(possible_nitrogen_fixation_protein)_261168..261318_POSITIVE 344 100 53 145 89 aact:AA02184|3end_anthranilate_isomerase;_indole-3-glycerol_phosphate_synthase;_phosphoribosylanthranilate_isomerase_1492541..1492691_POSITIVE 340 86 55 89 58 aact:AA01992|3end_protease_IV;_signal_peptide_peptidase;_Endopeptidase_IV_1355004..1355154_POSITIVE 335 92 57 131 96 aact:AA01937|3end_sugar_fermentation_stimulation_protein_1309334..1309484_POSITIVE 334 87 55 67 35 aact:AA02275|3end_conserved_hypothetical_protein_1549955..1550105_POSITIVE 332 87 57 84 54 aact:AA02671|3end_gluconokinase_1858917..1859067_POSITIVE 327 90 42 88 42 aact:AA02443|3end_cytochrome_C_related_protein_1686590..1686740_POSITIVE 327 90 42 133 87 aact:AA02444|3end_hypothetical_protein_1686635..1686785_POSITIVE