Origin IGS: taattaattaccaatataataatattaatacccagtgcttaaaaaagcacaaccagttatcttaatcttcaccccttcgagtgcgatctcgacaaaataatacgcggtgggaatccgcagcattcacagggtcgcgcgattatacaaaaagtttcaatgaaaagctaacggtttatccggaaaacatgataaattttagccgcactttttctcttttcattcaccataatgccaaaaatactta .........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 taagtatttttggcattatggtgaatgaaaagagaaaaagtgcggctaaaatttatcatgttttccggataaaccgttagcttttcattgaaactttttgtataatcgcgcgaccctgtgaatgctgcggattcccaccgcgtattattttgtcgagatcgcactcgaaggggtgaagattaagataactggttgtgcttttttaagcactgggtattaatattattatattggtaattaatta Mask Tandem Repeat Region ================================================ taattaattaccaatataataatattaatacccagtgcttaaaaaagcacaaccagttatcttaatcttcaccccttcgagtgcgatctcgacaaaataatacgcggtgggaatccgcagcattcacagggtcgcgcgattatacaaaaagtttcaatgaaaagctaacggtttatccggaaaacatgataaattttagccgcactttttctcttttcattcaccataatgccaaaaatactta Find is-nt database================================================ Query_seq: AA02262:AA02263|AA02262:AA02263:50S ribosomal protein L13:conserved hypothetical protein:->->:1538988..1539231 244 taattaattaccaatataataatattaatacccagtgcttaaaaaagcacaaccagttatcttaatcttcaccccttcgagtgcgatctcgacaaaataatacgcggtgggaatccgcagcattcacagggtcgcgcgattatacaaaaagtttcaatgaaaagctaacggtttatccggaaaacatgataaattttagccgcactttttctcttttcattcaccataatgccaaaaatactta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA02262:AA02263|AA02262:AA02263:50S ribosomal protein L13:conserved hypothetical protein:->->:1538988..1539231 244 taattaattaccaatataataatattaatacccagtgcttaaaaaagcacaaccagttatcttaatcttcaccccttcgagtgcgatctcgacaaaataatacgcggtgggaatccgcagcattcacagggtcgcgcgattatacaaaaagtttcaatgaaaagctaacggtttatccggaaaacatgataaattttagccgcactttttctcttttcattcaccataatgccaaaaatactta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA02262:AA02263|AA02262:AA02263:50S ribosomal protein L13:conserved hypothetical protein:->->:1538988..1539231 244 taattaattaccaatataataatattaatacccagtgcttaaaaaagcacaaccagttatcttaatcttcaccccttcgagtgcgatctcgacaaaataatacgcggtgggaatccgcagcattcacagggtcgcgcgattatacaaaaagtttcaatgaaaagctaacggtttatccggaaaacatgataaattttagccgcactttttctcttttcattcaccataatgccaaaaatactta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taattaattaccaatataataatattaatacccagtgcttaaaaaagcacaaccagttatcttaatcttcaccccttcgagtgcgatctcgacaaaataatacgcggtgggaatccgcagcattcacagggtcgcgcgattatacaaaaagtttcaatgaaaagctaacggtttatccggaaaacatgataaattttagccgcactttttctcttttcattcaccataatgccaaaaatactta Predict ORF larger than 30AA ================================================ Protein_Len: 54 Strand: + Start: 81 End: 242 ................................................................................ M R S R Q N N T R W E S A A F T G S R D Y T K S F N E K L T V Y P E N M I N F S R T F S L F I H H N A K N T .. Protein_Len: 32 Strand: - Start: 28 End: 123 ........................... Y G T S L F A C G T I K I K V G E L A I E V F Y Y A T P I R L M ......................................................................................................................... taattaattaccaatataataatattaatacccagtgcttaaaaaagcacaaccagttatcttaatcttcaccccttcgagtgcgatctcgacaaaataatacgcggtgggaatccgcagcattcacagggtcgcgcgattatacaaaaagtttcaatgaaaagctaacggtttatccggaaaacatgataaattttagccgcactttttctcttttcattcaccataatgccaaaaatactta 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================================================ taattaattaccaatataataatattaatacccagtgcttaaaaaagcacaaccagttatcttaatcttcaccccttcgagtgcgatctcgacaaaataatacgcggtgggaatccgcagcattcacagggtcgcgcgattatacaaaaagtttcaatgaaaagctaacggtttatccggaaaacatgataaattttagccgcactttttctcttttcattcaccataatgccaaaaatactta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA02262:AA02263|AA02262:AA02263:50S ribosomal protein L13:conserved hypothetical protein:->->:1538988..1539231 244 taattaattaccaatataataatattaatacccagtgcttaaaaaagcacaaccagttatcttaatcttcaccccttcgagtgcgatctcgacaaaataatacgcggtgggaatccgcagcattcacagggtcgcgcgattatacaaaaagtttcaatgaaaagctaacggtttatccggaaaacatgataaattttagccgcactttttctcttttcattcaccataatgccaaaaatactta Intra-Species Hit: Count: 1 Min: 1 Max: 244 Len: 244 Subject: aact_AA02262_AA02263|50S ribosomal protein L13:conserved hypothetical protein|POSITIVE:POSITIVE|[1538988,1539231]|244 HSP 1 e-value: 1.0E-136 bit: 484.0 Len: 244 Query Start:1 Query End:244 Subject Strand: POSITIVE Subject Start: 1 Subject End: 244 taattaattaccaatataataatattaatacccagtgcttaaaaaagcacaaccagttatcttaatcttcaccccttcgagtgcgatctcgacaaaataatacgcggtgggaatccgcagcattcacagggtcgcgcgattatacaaaaagtttcaatgaaaagctaacggtttatccggaaaacatgataaattttagccgcactttttctcttttcattcaccataatgccaaaaatactta taattaattaccaatataataatattaatacccagtgcttaaaaaagcacaaccagttatcttaatcttcaccccttcgagtgcgatctcgacaaaataatacgcggtgggaatccgcagcattcacagggtcgcgcgattatacaaaaagtttcaatgaaaagctaacggtttatccggaaaacatgataaattttagccgcactttttctcttttcattcaccataatgccaaaaatactta Inter-species Hit: Count: 1 Min: 1 Max: 147 Len: 147 Subject: NC_008309_HS_0751_HS_0752|hypothetical protein:50S ribosomal protein L13|POSITIVE:POSITIVE|[807016,807283]|268 HSP 1 e-value: 5.0E-26 bit: 119.0 Len: 147 Query Start:1 Query End:147 Subject Strand: NEGATIVE Subject Start: 116 Subject End: 268 taattaattaccaatataataatattaatacccagtgctta--aaa---aagcacaaccagttatcttaatcttcaccccttcgagtgcgatctcgacaaaataatacgcggtggg-aatccgcagcattcacagggtcgcgcgattatacaa................................................................................................. taattaattaccaataaaataatattaatacccagtgcttattaaacttaagcacaaccatcaatcttaatctccaccccttcgagtgtgatcttgataaaataatgtgcggtgggaaatccgacacattcacagggtccggcgattatacaa................................................................................................. Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUUAAUUACCAAUAUAAUAAUAUUAAUACCCAGUGCUUAAAAAAGCACAACCAGUUAUCUUAAUCUUCACCCCUUCGAGUGCGAUCUCGACAAAAUAAUACGCGGUGGGAAUCCGCAGCAUUCACAGGGUCGCGCGAUUAUACAA ....(((((...(((((....)))))........((((((....))))))....)))))...(((((..(((((..(((((......)))))...........((.((((....)))).)).......)))).)...)))))..... (-28.30) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUGUAUAAUCGCGCGACCCUGUGAAUGCUGCGGAUUCCCACCGCGUAUUAUUUUGUCGAGAUCGCACUCGAAGGGGUGAAGAUUAAGAUAACUGGUUGUGCUUUUUUAAGCACUGGGUAUUAAUAUUAUUAUAUUGGUAAUUAAUUA .(((.(((..((((((((.....(((((.((((.......)))))))))...(((((..((((.(((((....)))))..))))..)))))..))))))))....))).))).....(((((((((....)))))))))........ (-41.70) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 373 139 104 80 47 aact:AA01202|5end_integrase/recombinase_823240..823470_POSITIVE 370 138 103 107 66 aact:AA01184|5end_hypothetical_protein_810838..811068_POSITIVE 360 139 103 166 137 aact:AA02195|5end_oxaloacetate_decarboxylase_alpha_chain_1494501..1494731_POSITIVE 356 136 101 223 193 aact:AA01203|5end_diaminopimelate_epimerase_824140..824370_POSITIVE 355 137 97 196 155 aact:AA01054|5end_conserved_hypothetical_protein_733678..733908_POSITIVE 354 140 104 55 8 aact:AA00809|5end_possible_oxidoreductase_553211..553441_POSITIVE 343 137 103 98 59 aact:AA01066|5end_conserved_hypothetical_protein_738380..738610_POSITIVE 338 138 111 226 189 aact:AA00993|5end_possible_D-tyrosyl-tRNA(Tyr)_deacylase_694488..694718_POSITIVE 336 124 81 154 119 aact:AA02864|5end_glycerol-3-phosphate_transport_protein_2008784..2009014_POSITIVE 336 124 81 37 2 aact:AA02862|5end_hypothetical_protein_2008667..2008897_POSITIVE 336 140 103 193 144 aact:AA00282|5end_peptidyl-prolyl_cis-trans_isomerase;_macrophage_infectivity_potentiator_198834..199064_POSITIVE 334 138 93 150 110 aact:AA00409|5end_methionyl-tRNA_formyltransferase_273611..273841_POSITIVE 330 138 102 227 188 aact:AA01767|5end_conserved_hypothetical_protein_1192528..1192758_POSITIVE 329 124 104 92 72 aact:AA00587|5end_hypothetical_protein_399975..400205_POSITIVE 327 140 103 80 40 aact:AA00141|5end_hypoxanthine_phosphoribosyl_transferase_(HPRT)_100814..101044_POSITIVE 325 138 100 57 3 aact:AA01159|5end_phosphatase_792828..793058_POSITIVE 319 138 101 69 26 aact:AA02954|5end_penicillin_tolerance_protein;_hydroxymethylbutenyl_pyrophosphate_reductase_2065610..2065840_POSITIVE 319 139 101 198 158 aact:AA02601|5end_ATP-dependent_helicase_1811397..1811627_POSITIVE 319 138 102 143 108 aact:AA00595|5end_hypothetical_protein_407194..407424_POSITIVE 319 138 104 175 125 aact:AA00271|5end_hypothetical_protein_190264..190494_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 373 139 104 63 30 aact:AA01201|3end_phosphatase;_hydrolase_823303..823453_POSITIVE 370 138 103 91 50 aact:AA01183|3end_conserved_hypothetical_protein_810902..811052_POSITIVE 363 120 76 72 36 aact:AA01750|3end_MTA/SAH_nucleosidase_[Includes:_5'-methylthioadenosine_nucleosidase;_S-adenosylhomocysteine_nucleosidase]_1184519..1184669_POSITIVE 360 139 103 147 118 aact:AA02193|3end_oxaloacetate_decarboxylase_gamma_chain_1494562..1494712_POSITIVE 336 124 81 138 103 aact:AA02862|3end_hypothetical_protein_2008848..2008998_POSITIVE 334 138 93 147 107 aact:AA00408|3end_SUN_protein_(FMU_protein)_273688..273838_POSITIVE 329 124 104 63 43 aact:AA00586|3end_glycerol-3-phosphate_regulon_repressor_400026..400176_POSITIVE 327 140 103 58 18 aact:AA00140|3end_hypothetical_protein_100872..101022_POSITIVE 319 138 101 66 23 aact:AA02952|3end_lipoprotein_signal_peptidase_2065687..2065837_POSITIVE 319 138 92 147 108 aact:AA00205|3end_ribose_ABC_transporter_protein_/_high_affinity_D-ribose_transport_protein_142658..142808_POSITIVE 318 120 72 114 77 aact:AA00041|3end_cytochrome_c-type_biogenesis_protein_33817..33967_POSITIVE 312 138 104 145 112 aact:AA02978|3end_sufI_protein_precursor_homolog_2083308..2083458_POSITIVE 310 138 99 72 25 aact:AA02225|3end_ABC_transporter_ATP-binding_protein_1514592..1514742_POSITIVE 305 137 104 78 46 aact:AA00191|3end_conserved_hypothetical_protein_(possible_acetyltransferase,_GNAT_family)_135545..135695_POSITIVE 304 137 104 77 50 aact:AA01987|3end_hypothetical_protein_1350620..1350770_POSITIVE 304 137 104 87 50 aact:AA01187|3end_conserved_hypothetical_protein_813992..814142_POSITIVE 303 139 103 51 10 aact:AA01957|3end_conserved_hypothetical_protein_1323467..1323617_POSITIVE 303 139 93 49 8 aact:AA01625|3end_riboflavin_synthase,_beta_chain_1100514..1100664_POSITIVE 302 138 105 149 115 aact:AA01696|3end_conserved_hypothetical_protein_1153730..1153880_POSITIVE 300 137 92 55 13 aact:AA01619|3end_phospho-2-dehydro-3-deoxyheptonate_aldolase_(DAHP_synthase)_1095578..1095728_POSITIVE