Origin IGS: taatctgccgttgataaatctaaatattcgattattgccaatataaaatcttttaatttacatgctcaatgtttaagttatatacgatataaactaatcattccaataaagaaccgcactctgaagctcaaagtgcggtcatttatcgtttcattttacttaactagtagcctttaggttttaaaaaagcactatataggatatcaatgaaattcaagatta .........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 taatcttgaatttcattgatatcctatatagtgcttttttaaaacctaaaggctactagttaagtaaaatgaaacgataaatgaccgcactttgagcttcagagtgcggttctttattggaatgattagtttatatcgtatataacttaaacattgagcatgtaaattaaaagattttatattggcaataatcgaatatttagatttatcaacggcagatta Mask Tandem Repeat Region ================================================ taatctgccgttgataaatctaaatattcgattattgccaatataaaatcttttaatttacatgctcaatgtttaagttatatacgatataaactaatcattccaataaagaaccgcactctgaagctcaaagtgcggtcatttatcgtttcattttacttaactagtagcctttaggttttaaaaaagcactatataggatatcaatgaaattcaagatta Find is-nt database================================================ Query_seq: AA02875:AA02876|AA02875:AA02876:conserved hypothetical protein (2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase):conserved hypothetical protein:->->:2018211..2018432 222 taatctgccgttgataaatctaaatattcgattattgccaatataaaatcttttaatttacatgctcaatgtttaagttatatacgatataaactaatcattccaataaagaaccgcactctgaagctcaaagtgcggtcatttatcgtttcattttacttaactagtagcctttaggttttaaaaaagcactatataggatatcaatgaaattcaagatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA02875:AA02876|AA02875:AA02876:conserved hypothetical protein (2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase):conserved hypothetical protein:->->:2018211..2018432 222 taatctgccgttgataaatctaaatattcgattattgccaatataaaatcttttaatttacatgctcaatgtttaagttatatacgatataaactaatcattccaataaagaaccgcactctgaagctcaaagtgcggtcatttatcgtttcattttacttaactagtagcctttaggttttaaaaaagcactatataggatatcaatgaaattcaagatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA02875:AA02876|AA02875:AA02876:conserved hypothetical protein (2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase):conserved hypothetical protein:->->:2018211..2018432 222 taatctgccgttgataaatctaaatattcgattattgccaatataaaatcttttaatttacatgctcaatgtttaagttatatacgatataaactaatcattccaataaagaaccgcactctgaagctcaaagtgcggtcatttatcgtttcattttacttaactagtagcctttaggttttaaaaaagcactatataggatatcaatgaaattcaagatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taatctgccgttgataaatctaaatattcgattattgccaatataaaatcttttaatttacatgctcaatgtttaagttatatacgatataaactaatcattccaataaagaaccgcactctgaagctcaaagtgcggtcatttatcgtttcattttacttaactagtagcctttaggttttaaaaaagcactatataggatatcaatgaaattcaagatta Predict ORF larger than 30AA ================================================ Protein_Len: 48 Strand: + Start: 31 End: 174 .............................. M I A N I K S F N L H A Q C L S Y I R Y K L I I P I K N R T L K L K V R S F I V S F Y L T S S L ................................................ taatctgccgttgataaatctaaatattcgattattgccaatataaaatcttttaatttacatgctcaatgtttaagttatatacgatataaactaatcattccaataaagaaccgcactctgaagctcaaagtgcggtcatttatcgtttcattttacttaactagtagcctttaggttttaaaaaagcactatataggatatcaatgaaattcaagatta 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================================================ taatctgccgttgataaatctaaatattcgattattgccaatataaaatcttttaatttacatgctcaatgtttaagttatatacgatataaactaatcattccaataaagaaccgcactctgaagctcaaagtgcggtcatttatcgtttcattttacttaactagtagcctttaggttttaaaaaagcactatataggatatcaatgaaattcaagatta Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 91 HP_score: -10.1 Tail_Score: -4.27062 Start: 104 End: 148 Full_Region: ATAAACTAATCATTC CAATAAAGAACCGCACTCTGA AGC TCAAAGTGCGGTCATTTATCG TTTCATTTTACTTAA .......................................................................................................CAATAAAGAACCGCACTCTGAAGCTCAAAGTGCGGTCATTTATCG.......................................................................... TransTerm Strand: + Conf: 84 HP_score: -10.4 Tail_Score: -3.11579 Start: 107 End: 145 Full_Region: AACTAATCATTCCAA TAAAGAACCGCACTCTGA AGC TCAAAGTGCGGTCATTTA TCGTTTCATTTTACT ..........................................................................................................TAAAGAACCGCACTCTGAAGCTCAAAGTGCGGTCATTTA............................................................................. TransTerm Strand: - Conf: 100 HP_score: -15.1 Tail_Score: -4.21438 Start: 114 End: 138 Full_Region: tgaaacgataaatga ccgcactttga gct tcagagtgcgg ttctttattggaatg .................................................................................................................ccgcactttgagcttcagagtgcgg.................................................................................... Find igs database================================================ Query_seq: AA02875:AA02876|AA02875:AA02876:conserved hypothetical protein (2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase):conserved hypothetical protein:->->:2018211..2018432 222 taatctgccgttgataaatctaaatattcgattattgccaatataaaatcttttaatttacatgctcaatgtttaagttatatacgatataaactaatcattccaataaagaaccgcactctgaagctcaaagtgcggtcatttatcgtttcattttacttaactagtagcctttaggttttaaaaaagcactatataggatatcaatgaaattcaagatta Intra-Species Hit: Count: 1 Min: 1 Max: 222 Len: 222 Subject: aact_AA02875_AA02876|conserved hypothetical protein (2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase):conserved hypothetical protein|POSITIVE:POSITIVE|[2018211,2018432]|222 HSP 1 e-value: 1.0E-123 bit: 440.0 Len: 222 Query Start:1 Query End:222 Subject Strand: POSITIVE Subject Start: 1 Subject End: 222 taatctgccgttgataaatctaaatattcgattattgccaatataaaatcttttaatttacatgctcaatgtttaagttatatacgatataaactaatcattccaataaagaaccgcactctgaagctcaaagtgcggtcatttatcgtttcattttacttaactagtagcctttaggttttaaaaaagcactatataggatatcaatgaaattcaagatta taatctgccgttgataaatctaaatattcgattattgccaatataaaatcttttaatttacatgctcaatgtttaagttatatacgatataaactaatcattccaataaagaaccgcactctgaagctcaaagtgcggtcatttatcgtttcattttacttaactagtagcctttaggttttaaaaaagcactatataggatatcaatgaaattcaagatta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUCUGCCGUUGAUAAAUCUAAAUAUUCGAUUAUUGCCAAUAUAAAAUCUUUUAAUUUACAUGCUCAAUGUUUAAGUUAUAUACGAUAUAAACUAAUCAUUCCAAUAAAGAACCGCACUCUGAAGCUCAAAGUGCGGUCAUUUAUCGUUUCAUUUUACUUAACUAGUAGCCUUUAGGUUUUAAAAAAGCACUAUAUAGGAUAUCAAUGAAAUUCAAGAUUA ((((((......(((((((............((((((................((((((((((.....))))..)))))).....(((........)))....))))))...((((((((.((.....)).)))))))).))))))).(((((((.((((.....)))).(((.(((((((.....)))).)))...))).....)))))))....)))))) (-38.80) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUCUUGAAUUUCAUUGAUAUCCUAUAUAGUGCUUUUUUAAAACCUAAAGGCUACUAGUUAAGUAAAAUGAAACGAUAAAUGACCGCACUUUGAGCUUCAGAGUGCGGUUCUUUAUUGGAAUGAUUAGUUUAUAUCGUAUAUAACUUAAACAUUGAGCAUGUAAAUUAAAAGAUUUUAUAUUGGCAAUAAUCGAAUAUUUAGAUUUAUCAACGGCAGAUUA ((((((.(....((.((((((..(((..((((((((((.........)))))).))))((((((((((((....(((((((.((((((((((((.....)))))))))))).)))))))......(((((((((((.((.((............)).)))))))))))))...))))))).)))))..............)))...)))))).))))))))) (-50.80) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 424 140 96 222 172 aact:AA00976|5end_conserved_hypothetical_protein_681206..681436_POSITIVE 398 159 113 186 128 aact:AA02410|5end_cell_division_protein_1655429..1655659_POSITIVE 383 139 98 145 98 aact:AA00987|5end_tetracenomycin_polyketide_synthesis_O-methyltransferase_689745..689975_POSITIVE 376 144 104 141 89 aact:AA00047|5end_formate_dependent_nitrite_reductase,_cytochrome_c552_36753..36983_POSITIVE 371 139 99 146 100 aact:AA02252|5end_conserved_hypothetical_protein_1533840..1534070_POSITIVE 365 151 113 153 111 aact:AA02836|5end_colicin_transport_protein_1991777..1992007_POSITIVE 365 151 113 77 35 aact:AA02835|5end_hypothetical_protein_1991701..1991931_POSITIVE 365 140 100 51 4 aact:AA01853|5end_hypothetical_protein_1246458..1246688_POSITIVE 363 139 96 146 95 aact:AA02762|5end_ribonuclease_H_1933164..1933394_POSITIVE 360 140 103 148 102 aact:AA00390|5end_permease_263689..263919_POSITIVE 352 159 113 162 113 aact:AA00686|5end_hypothetical_protein_468852..469082_POSITIVE 345 140 108 224 190 aact:AA01342|5end_conserved_hypotheticl_protein_(possible_ribosomal_RNA_adenine_dimethylase)_910208..910438_POSITIVE 344 139 91 135 93 aact:AA00508|5end_SAM-dependent_methyltransferase_353096..353326_POSITIVE 337 140 100 147 98 aact:AA00613|5end_lipid-A-disaccharide_synthase_418713..418943_POSITIVE 329 140 112 146 112 aact:AA01704|5end_tyrosine-specific_transport_protein_1156170..1156400_POSITIVE 327 148 110 231 197 aact:AA00169|5end_conserved_hypothetical_protein_120312..120542_POSITIVE 325 144 107 156 108 aact:AA01436|5end_fructose-bisphosphate_aldolase_class_II_962981..963211_POSITIVE 324 149 109 156 104 aact:AA01936|5end_tyrosyl-tRNA_synthetase_1307043..1307273_POSITIVE 322 139 92 148 89 aact:AA02980|5end_conserved_hypothetical_protein_2083305..2083535_POSITIVE 320 154 113 172 127 aact:AA01027|5end_Na(+)-translocating_NADH-quinone_reductase_subunit_F_717676..717906_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 424 140 96 63 13 aact:AA00974|3end_glucosamine-fructose-6-phosphate_681127..681277_POSITIVE 398 159 113 81 23 aact:AA02409|3end_DNA_ligase_1655404..1655554_POSITIVE 383 139 98 61 14 aact:AA00985|3end_transcriptional_regulator_(LysR_family)_689741..689891_POSITIVE 381 140 100 66 21 aact:AA00223|3end_catalase_(hydroperoxidase;_iron_heme_axial_ligand)_155808..155958_POSITIVE 376 144 104 64 12 aact:AA00046|3end_formate_dependent_nitrite_reductase,_cytochrome-c_type_protein_36756..36906_POSITIVE 371 139 99 69 23 aact:AA02251|3end_biotin_sulfoxide_reductase;_Trimethylamine-N-oxide_reductase_precursor_1533843..1533993_POSITIVE 365 151 113 64 22 aact:AA02834|3end_colicin_transport_protein_1991768..1991918_POSITIVE 365 140 100 64 17 aact:AA01852|3end_peptide_chain_release_factor_3_1246551..1246701_POSITIVE 363 139 96 52 1 aact:AA02758|3end_3-phosphoshikimate_1-carboxyvinyltransferase_1933150..1933300_POSITIVE 352 159 113 91 42 aact:AA00684|3end_adenylosuccinate_synthase_468861..469011_POSITIVE 347 148 105 110 62 aact:AA02135|3end_hypothetical_protein_1459067..1459217_POSITIVE 347 148 105 126 78 aact:AA02135.1|3end_hypothetical_protein_1459083..1459233_POSITIVE 345 140 108 67 33 aact:AA01341|3end_acriflavine_resistance_protein_910131..910281_POSITIVE 344 139 91 48 6 aact:AA00506|3end_ATP-dependent_RNA_helicase_protein_353089..353239_POSITIVE 337 140 100 59 10 aact:AA00612|3end_acyl-(acyl-carrier-protein)-UDP-N-acetylglucosami_ne_418705..418855_POSITIVE 329 140 112 57 23 aact:AA01703|3end_L-ribulose-phosphate_4-epimerase_1156161..1156311_POSITIVE 327 148 110 79 45 aact:AA00168|3end_possible_sigma_54_modulation_protein_120240..120390_POSITIVE 325 144 107 116 68 aact:AA01434|3end_conserved_hypothetical_protein_(possible_o-antigen_ligase)_963021..963171_POSITIVE 322 139 92 71 12 aact:AA02978|3end_sufI_protein_precursor_homolog_2083308..2083458_POSITIVE 319 139 108 81 48 aact:AA02136|3end_aspartate_aminotransferase_1460476..1460626_POSITIVE