Origin IGS: taataaaaaatgttgttttttatgaccgcactttatttgtaactgcactttaaatgaaaaaagcaccttagaggtgcttttttgtttcttatgagatttatgagatta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taatctcataaatctcataagaaacaaaaaagcacctctaaggtgcttttttcatttaaagtgcagttacaaataaagtgcggtcataaaaaacaacattttttatta Mask Tandem Repeat Region ================================================ taataaaaaatgttgttttttatgaccgcactttatttgtaactgcactttaaatgaaaaaagcaccttagaggtgcttttttgtttcttatgagatttatgagatta Find is-nt database================================================ Query_seq: AA02023:AA02024|AA02023:AA02024:NADH dehydrogenase:acyl carrier protein phosphodiesterase:->->:1378176..1378283 108 taataaaaaatgttgttttttatgaccgcactttatttgtaactgcactttaaatgaaaaaagcaccttagaggtgcttttttgtttcttatgagatttatgagatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA02023:AA02024|AA02023:AA02024:NADH dehydrogenase:acyl carrier protein phosphodiesterase:->->:1378176..1378283 108 taataaaaaatgttgttttttatgaccgcactttatttgtaactgcactttaaatgaaaaaagcaccttagaggtgcttttttgtttcttatgagatttatgagatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA02023:AA02024|AA02023:AA02024:NADH dehydrogenase:acyl carrier protein phosphodiesterase:->->:1378176..1378283 108 taataaaaaatgttgttttttatgaccgcactttatttgtaactgcactttaaatgaaaaaagcaccttagaggtgcttttttgtttcttatgagatttatgagatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taataaaaaatgttgttttttatgaccgcactttatttgtaactgcactttaaatgaaaaaagcaccttagaggtgcttttttgtttcttatgagatttatgagatta Predict ORF larger than 30AA ================================================ taataaaaaatgttgttttttatgaccgcactttatttgtaactgcactttaaatgaaaaaagcaccttagaggtgcttttttgtttcttatgagatttatgagatta 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================================================ taataaaaaatgttgttttttatgaccgcactttatttgtaactgcactttaaatgaaaaaagcaccttagaggtgcttttttgtttcttatgagatttatgagatta Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 100 HP_score: -11.9 Tail_Score: -4.33851 Start: 56 End: 84 Full_Region: AACTGCACTTTAAAT GAAAAAAGCACCT TAG AGGTGCTTTTTTG TTTCTTATGAGATTT .......................................................GAAAAAAGCACCTTAGAGGTGCTTTTTTG........................ TransTerm Strand: + Conf: 100 HP_score: -10.0 Tail_Score: -5.82036 Start: 63 End: 77 Full_Region: CTTTAAATGAAAAAA GCACCT TAG AGGTGC TTTTTTGTTTCTTAT ..............................................................GCACCTTAGAGGTGC............................... Find igs database================================================ Query_seq: AA02023:AA02024|AA02023:AA02024:NADH dehydrogenase:acyl carrier protein phosphodiesterase:->->:1378176..1378283 108 taataaaaaatgttgttttttatgaccgcactttatttgtaactgcactttaaatgaaaaaagcaccttagaggtgcttttttgtttcttatgagatttatgagatta Intra-Species Hit: Count: 1 Min: 1 Max: 108 Len: 108 Subject: aact_AA02023_AA02024|NADH dehydrogenase:acyl carrier protein phosphodiesterase|POSITIVE:POSITIVE|[1378176, 1378283]|108 HSP 1 e-value: 4.0E-55 bit: 214.0 Len: 108 Query Start:1 Query End:108 Subject Strand: POSITIVE Subject Start: 1 Subject End: 108 taataaaaaatgttgttttttatgaccgcactttatttgtaactgcactttaaatgaaaaaagcaccttagaggtgcttttttgtttcttatgagatttatgagatta taataaaaaatgttgttttttatgaccgcactttatttgtaactgcactttaaatgaaaaaagcaccttagaggtgcttttttgtttcttatgagatttatgagatta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUAAAAAAUGUUGUUUUUUAUGACCGCACUUUAUUUGUAACUGCACUUUAAAUGAAAAAAGCACCUUAGAGGUGCUUUUUUGUUUCUUAUGAGAUUUAUGAGAUUA ..(((((((((...)))))))))....(((.((.......)).)))..........(((((((((((.....)))))))))))...((((((((...))))))))... (-22.80) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUCUCAUAAAUCUCAUAAGAAACAAAAAAGCACCUCUAAGGUGCUUUUUUCAUUUAAAGUGCAGUUACAAAUAAAGUGCGGUCAUAAAAAACAACAUUUUUUAUUA ................((((((((.(((((((((((.....))))))))))).........((((.((.......)).))))................)))))))).. (-19.20) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 459 50 3 196 146 aact:AA00654|5end_conserved_hypothetical_protein_447772..448002_POSITIVE 459 50 3 106 56 aact:AA00653|5end_hypothetical_protein_447682..447912_POSITIVE 429 88 42 148 101 aact:AA01563|5end_transketolase_isozyme_1_1046969..1047199_POSITIVE 361 46 5 145 103 aact:AA01554|5end_conserved_hypothetical_protein;_hypothetical_membrane_protein_1042061..1042291_POSITIVE 350 50 3 148 99 aact:AA00546|5end_cytochrome_C-type_protein_(denitrification_system_component)_374427..374657_POSITIVE 338 48 5 101 57 aact:AA01953|5end_hypothetical_protein_1320132..1320362_POSITIVE 326 34 4 133 103 aact:AA02987|5end_histidine_triad_protein_homolog_2088767..2088997_POSITIVE 322 54 11 164 129 aact:AA02010|5end_peptide_methionine_sulfoxide_reductase;_cytochrome_C-TYPE_biogenesis_protein;_transcriptional_regulator_1367180..1367410_POSITIVE 318 40 3 198 163 aact:AA02902|5end_aerobic_respiration_control_protein_2031171..2031401_POSITIVE 313 70 23 196 145 aact:AA02993|5end_6-phosphofructokinase_2091766..2091996_POSITIVE 303 47 6 135 96 aact:AA02716|5end_peptidase_T_1899789..1900019_POSITIVE 300 48 6 130 93 aact:AA01291|5end_excinuclease_ABC_subunit_A_872829..873059_POSITIVE 294 67 22 142 99 aact:AA00674|5end_nicotinate-nucleotide-dimethylbenzimidazole_phosphoribosyltransferase_461810..462040_POSITIVE 292 34 4 122 92 aact:AA01603|5end_oligopeptidase_A_1082898..1083128_POSITIVE 290 34 4 230 199 aact:AA02220|5end_ABC_transport_system_permease_protein_1511155..1511385_POSITIVE 284 54 22 158 125 aact:AA02410|5end_cell_division_protein_1655429..1655659_POSITIVE 283 69 22 147 103 aact:AA01183|5end_conserved_hypothetical_protein_810442..810672_POSITIVE 282 36 6 124 94 aact:AA01315|5end_DNA/pantothenate_metabolism_flavoprotein_890091..890321_POSITIVE 282 36 6 54 24 aact:AA01314|5end_hypothetical_protein_890021..890251_POSITIVE 278 59 12 182 137 aact:AA01559|5end_RecA_regulatory_protein,_RecX_1045970..1046200_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 429 88 42 70 23 aact:AA01561|3end_conserved_hypothetical_protein_1046971..1047121_POSITIVE 350 50 3 56 7 aact:AA00545|3end_glutathionylspermidine_synthetase;amidase_374415..374565_POSITIVE 341 47 5 97 49 aact:AA00218|3end_argininosuccinate_lyase_152211..152361_POSITIVE 329 48 6 44 1 aact:AA01952|3end_ABC_transporter,_substrate_binding_protein_1320155..1320305_POSITIVE 318 40 3 85 50 aact:AA02899|3end_oligopeptide_ABC_transporter,_ATP-binding_protein_2031138..2031288_POSITIVE 313 70 23 90 39 aact:AA02992|3end_RNA_methyltransferase_2091740..2091890_POSITIVE 303 47 6 53 14 aact:AA02715|3end_paraquat-inducible_protein_pqiB_homolog_1899787..1899937_POSITIVE 300 48 6 69 32 aact:AA01289|3end_hypothetical_protein_872848..872998_POSITIVE 284 54 22 53 20 aact:AA02409|3end_DNA_ligase_1655404..1655554_POSITIVE 283 69 22 135 91 aact:AA01182|3end_3-oxoacyl-(acyl-carrier-protein)_synthase_810510..810660_POSITIVE 282 36 6 149 119 aact:AA01314|3end_hypothetical_protein_890196..890346_POSITIVE 282 36 6 52 22 aact:AA01313|3end_deoxyuridinetriphosphatase;_deoxyuridine_5'-triphosphate_nucleotidohydrolase_890099..890249_POSITIVE 279 50 1 69 14 aact:AA02813|3end_hypothetical_protein_1980298..1980448_POSITIVE 278 59 12 97 52 aact:AA01557|3end_recombinase_A_1045965..1046115_POSITIVE 277 48 4 101 58 aact:AA00486|3end_nucleoside_transporter_338026..338176_POSITIVE 275 83 57 34 8 aact:AA02023|3end_NADH_dehydrogenase_1378115..1378265_POSITIVE 275 46 4 87 43 aact:AA01880|3end_N-acetylglucosamine_repressor_1268383..1268533_POSITIVE 275 44 4 72 33 aact:AA00089|3end_S-adenosylmethionine_synthase;_methionine_adenosyltransferase_67749..67899_POSITIVE 272 44 4 89 45 aact:AA01391|3end_glycerol-3-phosphate_acyltransferase_940402..940552_POSITIVE 269 45 4 93 52 aact:AA02777|3end_tRNA-guanine_transglycosylase_1942527..1942677_POSITIVE