Origin IGS: tgtttgttacttctctacatttagtcatcgttaaaattgaaaacatattagtatttagtgaataattatgcaaatgaaacttataaaaaatcccaactcattttgggattttaaaaacgtttgtcaaaatgaccgcactttta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taaaagtgcggtcattttgacaaacgtttttaaaatcccaaaatgagttgggattttttataagtttcatttgcataattattcactaaatactaatatgttttcaattttaacgatgactaaatgtagagaagtaacaaaca Mask Tandem Repeat Region ================================================ tgtttgttacttctctacatttagtcatcgttaaaattgaaaacatattagtatttagtgaataattatgcaaatgaaacttataaaaaatcccaactcattttgggattttaaaaacgtttgtcaaaatgaccgcactttta Find is-nt database================================================ Query_seq: AA00858:AA00860|AA00858:AA00860:arginine ABC transporter, ATP-binding protein:phosphoheptose isomerase:->->:591863..592005 143 tgtttgttacttctctacatttagtcatcgttaaaattgaaaacatattagtatttagtgaataattatgcaaatgaaacttataaaaaatcccaactcattttgggattttaaaaacgtttgtcaaaatgaccgcactttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA00858:AA00860|AA00858:AA00860:arginine ABC transporter, ATP-binding protein:phosphoheptose isomerase:->->:591863..592005 143 tgtttgttacttctctacatttagtcatcgttaaaattgaaaacatattagtatttagtgaataattatgcaaatgaaacttataaaaaatcccaactcattttgggattttaaaaacgtttgtcaaaatgaccgcactttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA00858:AA00860|AA00858:AA00860:arginine ABC transporter, ATP-binding protein:phosphoheptose isomerase:->->:591863..592005 143 tgtttgttacttctctacatttagtcatcgttaaaattgaaaacatattagtatttagtgaataattatgcaaatgaaacttataaaaaatcccaactcattttgggattttaaaaacgtttgtcaaaatgaccgcactttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgtttgttacttctctacatttagtcatcgttaaaattgaaaacatattagtatttagtgaataattatgcaaatgaaacttataaaaaatcccaactcattttgggattttaaaaacgtttgtcaaaatgaccgcactttta Predict ORF larger than 30AA ================================================ Protein_Len: 30 Strand: - Start: 2 End: 91 . N T V E R C K T M T L I S F M N T N L S Y N H L H F K Y F M .................................................... tgtttgttacttctctacatttagtcatcgttaaaattgaaaacatattagtatttagtgaataattatgcaaatgaaacttataaaaaatcccaactcattttgggattttaaaaacgtttgtcaaaatgaccgcactttta Predict Promoter with matrix: RpoD-15 score > 80================================================ Predict Promoter with matrix: RpoD-16 score > 80================================================ Predict Promoter with matrix: RpoD-17 score > 80================================================ PromScan Matrix: RpoD-17 Strand: - Score: 81 Start: 45 End: 74 ............................................TTTGCATAATTATTCACTAAATACTAATAT..................................................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ tgtttgttacttctctacatttagtcatcgttaaaattgaaaacatattagtatttagtgaataattatgcaaatgaaacttataaaaaatcccaactcattttgggattttaaaaacgtttgtcaaaatgaccgcactttta Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 64 HP_score: -5.6 Tail_Score: -4.10453 Start: 91 End: 108 Full_Region: GAAACTTATAAAAAA TCCCAA CTCATT TTGGGA TTTTAAAAACGTTTG ..........................................................................................TCCCAACTCATTTTGGGA................................... Find igs database================================================ Query_seq: AA00858:AA00860|AA00858:AA00860:arginine ABC transporter, ATP-binding protein:phosphoheptose isomerase:->->:591863..592005 143 tgtttgttacttctctacatttagtcatcgttaaaattgaaaacatattagtatttagtgaataattatgcaaatgaaacttataaaaaatcccaactcattttgggattttaaaaacgtttgtcaaaatgaccgcactttta Intra-Species Hit: Count: 1 Min: 1 Max: 143 Len: 143 Subject: aact_AA00858_AA00860|arginine ABC transporter, ATP-binding protein:phosphoheptose isomerase|POSITIVE:POSITIVE|[591863,592005]|143 HSP 1 e-value: 8.0E-76 bit: 283.0 Len: 143 Query Start:1 Query End:143 Subject Strand: POSITIVE Subject Start: 1 Subject End: 143 tgtttgttacttctctacatttagtcatcgttaaaattgaaaacatattagtatttagtgaataattatgcaaatgaaacttataaaaaatcccaactcattttgggattttaaaaacgtttgtcaaaatgaccgcactttta tgtttgttacttctctacatttagtcatcgttaaaattgaaaacatattagtatttagtgaataattatgcaaatgaaacttataaaaaatcccaactcattttgggattttaaaaacgtttgtcaaaatgaccgcactttta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGUUUGUUACUUCUCUACAUUUAGUCAUCGUUAAAAUUGAAAACAUAUUAGUAUUUAGUGAAUAAUUAUGCAAAUGAAACUUAUAAAAAAUCCCAACUCAUUUUGGGAUUUUAAAAACGUUUGUCAAAAUGACCGCACUUUUA .((((............(((((.(.(((.((((..((((((.((......)).))))))...)))).)))))))))..........((((((((((......))))))))))..))))....(((.....))).......... (-23.10) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAAGUGCGGUCAUUUUGACAAACGUUUUUAAAAUCCCAAAAUGAGUUGGGAUUUUUUAUAAGUUUCAUUUGCAUAAUUAUUCACUAAAUACUAAUAUGUUUUCAAUUUUAACGAUGACUAAAUGUAGAGAAGUAACAAACA .....((((.(((.....))).(((......((((((((((......))))))))))......)))......))))..............((((..(((((((...(((.....)))....)))))))....))))....... (-21.90) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 449 140 93 222 167 aact:AA00579|5end_probable_DNA_recombination_protein_395265..395495_POSITIVE 385 140 104 150 115 aact:AA00386|5end_aspartate--ammonia_ligase_(asparagine_synthetase_A)_261150..261380_POSITIVE 341 140 112 123 95 aact:AA02716|5end_peptidase_T_1899789..1900019_POSITIVE 336 140 106 175 141 aact:AA00212|5end_ribokinase_146056..146286_POSITIVE 336 140 106 74 40 aact:AA00211|5end_hypothetical_protein_145955..146185_POSITIVE 335 140 111 131 102 aact:AA01972|5end_phosphotransacetylase_1332219..1332449_POSITIVE 331 140 95 121 76 aact:AA01315|5end_DNA/pantothenate_metabolism_flavoprotein_890091..890321_POSITIVE 331 140 95 51 6 aact:AA01314|5end_hypothetical_protein_890021..890251_POSITIVE 330 140 91 186 130 aact:AA00113|5end_uracil_phosphoribosyltransferase_81286..81516_POSITIVE 322 140 106 121 88 aact:AA01393|5end_ABC_transporter,_ATP-binding_protein_940369..940599_POSITIVE 319 140 103 93 52 aact:AA00733|5end_hypothetical_protein_502335..502565_POSITIVE 312 140 92 181 137 aact:AA01522|5end_conserved_hypothetical_protein_1022840..1023070_POSITIVE 312 140 113 220 193 aact:AA01424|5end_threonine_deaminase_(dehydratase)_957740..957970_POSITIVE 308 140 107 219 186 aact:AA02778|5end_hypothetical_protein_1942585..1942815_POSITIVE 306 140 91 124 81 aact:AA01832|5end_formate_dehydrogenase_formation_protein_E_1233609..1233839_POSITIVE 300 140 93 121 70 aact:AA02937|5end_conserved_hypothetical_protein_2056379..2056609_POSITIVE 297 140 100 121 71 aact:AA00988|5end_conserved_hypothetical_protein_690898..691128_POSITIVE 295 140 113 153 126 aact:AA02409|5end_DNA_ligase_1653315..1653545_POSITIVE 293 140 112 119 91 aact:AA02106|5end_hypothetical_protein_1433241..1433471_POSITIVE 292 140 91 207 154 aact:AA01349|5end_NAD(P)H_nitroreductase/H-flavin_oxidoreductase_913619..913849_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 449 140 93 78 23 aact:AA00578|3end_DNA_topoisomerase_395201..395351_POSITIVE 385 140 104 88 53 aact:AA00384|3end_conserved_hypothetical_protein_(possible_nitrogen_fixation_protein)_261168..261318_POSITIVE 341 140 112 41 13 aact:AA02715|3end_paraquat-inducible_protein_pqiB_homolog_1899787..1899937_POSITIVE 341 140 93 60 8 aact:AA00981|3end_carboxylesterase_686377..686527_POSITIVE 336 140 106 71 37 aact:AA00209|3end_D-ribose_ABC_transporter,_periplasmic-binding_protein_146032..146182_POSITIVE 331 140 95 146 101 aact:AA01314|3end_hypothetical_protein_890196..890346_POSITIVE 331 140 95 49 4 aact:AA01313|3end_deoxyuridinetriphosphatase;_deoxyuridine_5'-triphosphate_nucleotidohydrolase_890099..890249_POSITIVE 330 140 91 59 3 aact:AA00112|3end_uracil_permease_81239..81389_POSITIVE 324 140 91 146 96 aact:AA01448|3end_hypothetical_protein_970392..970542_POSITIVE 324 140 91 80 30 aact:AA01446|3end_conserved_hypothetical_protein_970326..970476_POSITIVE 322 140 106 74 41 aact:AA01391|3end_glycerol-3-phosphate_acyltransferase_940402..940552_POSITIVE 319 140 103 105 64 aact:AA00732|3end_citrate_lyase_ligase_502427..502577_POSITIVE 313 140 113 102 75 aact:AA02025|3end_hypothetical_protein_1378851..1379001_POSITIVE 312 140 92 148 104 aact:AA01520|3end_hypothetical_protein_1022887..1023037_POSITIVE 312 140 113 80 53 aact:AA01423|3end_cell_division_protein_X,_ABC_system_permease_957680..957830_POSITIVE 308 140 107 81 48 aact:AA02777|3end_tRNA-guanine_transglycosylase_1942527..1942677_POSITIVE 306 140 91 44 1 aact:AA01830|3end_2,3-cyclic-nucleotide_2-phosphodiesterase_1233609..1233759_POSITIVE 305 140 94 128 80 aact:AA01259|3end_protoporphyrinogen_oxidase_854943..855093_POSITIVE 296 140 95 82 36 aact:AA02443|3end_cytochrome_C_related_protein_1686590..1686740_POSITIVE 296 140 95 127 81 aact:AA02444|3end_hypothetical_protein_1686635..1686785_POSITIVE