Origin IGS: agcaccgagcgataccgccaatacccctgagacgatggcaatcttgctgttttttactgctttattaaacataatgttaaatatcctgaaattatgtacttgtta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taacaagtacataatttcaggatatttaacattatgtttaataaagcagtaaaaaacagcaagattgccatcgtctcaggggtattggcggtatcgctcggtgct Mask Tandem Repeat Region ================================================ agcaccgagcgataccgccaatacccctgagacgatggcaatcttgctgttttttactgctttattaaacataatgttaaatatcctgaaattatgtacttgtta Find is-nt database================================================ Query_seq: AA00254:AA00256|AA00254:AA00256:penicillin-binding protein 5:rare lipoprotein A precursor:->->:178835..178939 105 agcaccgagcgataccgccaatacccctgagacgatggcaatcttgctgttttttactgctttattaaacataatgttaaatatcctgaaattatgtacttgtta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA00254:AA00256|AA00254:AA00256:penicillin-binding protein 5:rare lipoprotein A precursor:->->:178835..178939 105 agcaccgagcgataccgccaatacccctgagacgatggcaatcttgctgttttttactgctttattaaacataatgttaaatatcctgaaattatgtacttgtta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA00254:AA00256|AA00254:AA00256:penicillin-binding protein 5:rare lipoprotein A precursor:->->:178835..178939 105 agcaccgagcgataccgccaatacccctgagacgatggcaatcttgctgttttttactgctttattaaacataatgttaaatatcctgaaattatgtacttgtta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 agcaccgagcgataccgccaatacccctgagacgatggcaatcttgctgttttttactgctttattaaacataatgttaaatatcctgaaattatgtacttgtta Predict ORF larger than 30AA ================================================ agcaccgagcgataccgccaatacccctgagacgatggcaatcttgctgttttttactgctttattaaacataatgttaaatatcctgaaattatgtacttgtta 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================================================ agcaccgagcgataccgccaatacccctgagacgatggcaatcttgctgttttttactgctttattaaacataatgttaaatatcctgaaattatgtacttgtta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA00254:AA00256|AA00254:AA00256:penicillin-binding protein 5:rare lipoprotein A precursor:->->:178835..178939 105 agcaccgagcgataccgccaatacccctgagacgatggcaatcttgctgttttttactgctttattaaacataatgttaaatatcctgaaattatgtacttgtta Intra-Species Hit: Count: 1 Min: 1 Max: 105 Len: 105 Subject: aact_AA00254_AA00256|penicillin-binding protein 5:rare lipoprotein A precursor|POSITIVE:POSITIVE|[178835,178939]|105 HSP 1 e-value: 3.0E-53 bit: 208.0 Len: 105 Query Start:1 Query End:105 Subject Strand: POSITIVE Subject Start: 1 Subject End: 105 agcaccgagcgataccgccaatacccctgagacgatggcaatcttgctgttttttactgctttattaaacataatgttaaatatcctgaaattatgtacttgtta agcaccgagcgataccgccaatacccctgagacgatggcaatcttgctgttttttactgctttattaaacataatgttaaatatcctgaaattatgtacttgtta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGCACCGAGCGAUACCGCCAAUACCCCUGAGACGAUGGCAAUCUUGCUGUUUUUUACUGCUUUAUUAAACAUAAUGUUAAAUAUCCUGAAAUUAUGUACUUGUUA ((((..(.(((....))))........(((((.(((((((....)))))))))))).)))).......(((((((.(((.......))).)))))))........ (-16.00) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAACAAGUACAUAAUUUCAGGAUAUUUAACAUUAUGUUUAAUAAAGCAGUAAAAAACAGCAAGAUUGCCAUCGUCUCAGGGGUAUUGGCGGUAUCGCUCGGUGCU .....(((((........................(((((....))))).........(((...(((((((....((....))...)))))))...)))..))))) (-18.40) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 393 47 1 57 6 aact:AA00475|5end_conserved_hypothetical_protein_(possible_N6-adenine-specific_methylase)_331621..331851_POSITIVE 357 49 1 70 4 aact:AA02507|5end_penicillin-insensitive_murein_endopeptidase_A_1740058..1740288_POSITIVE 353 46 1 76 12 aact:AA02561|5end_conserved_hypothetical_protein_1783553..1783783_POSITIVE 352 41 9 69 39 aact:AA01306|5end_glutathione_reductase_886538..886768_POSITIVE 346 50 1 182 116 aact:AA02145|5end_iron(III)_ABC_transporter,_ATP-binding_protein_1468602..1468832_POSITIVE 345 48 2 88 36 aact:AA01861|5end_phosphomethylpyrimidine_kinase_1251806..1252036_POSITIVE 339 50 1 202 147 aact:AA02742|5end_tRNA_nucleotidyltransferase_1921308..1921538_POSITIVE 334 49 4 217 177 aact:AA02678|5end_formate_dehydrogenase,_gamma_subunit_1865021..1865251_POSITIVE 332 46 7 40 1 aact:AA02682|5end_hydrogenase_maturation_protein_1866304..1866534_POSITIVE 330 39 1 67 23 aact:AA00804|5end_fumarate_reductase_flavoprotein_subunit_A_549770..550000_POSITIVE 321 50 2 228 184 aact:AA00682|5end_S-adenosylmethionine-dependent_methyltransferase_466322..466552_POSITIVE 314 49 2 71 12 aact:AA02895|5end_oligopeptide_transport_system_permease_protein,_C-terminal_2027484..2027714_POSITIVE 313 50 2 108 46 aact:AA02802|5end_probable_myo-inositol_2-dehydrogenase_1968999..1969229_POSITIVE 313 50 2 178 129 aact:AA01890|5end_cell-cycle_protein_1274544..1274774_POSITIVE 312 47 3 128 89 aact:AA01866|5end_thiamin_ABC_transporter,_permease_protein_1253313..1253543_POSITIVE 311 38 1 59 5 aact:AA00921|5end_conserved_hypothetical_protein_633332..633562_POSITIVE 309 49 1 101 57 aact:AA02609|5end_ABC_transporter,_ATP-binding_protein/permease_1818446..1818676_POSITIVE 308 50 2 104 52 aact:AA00603|5end_undecaprenyl_pyrophosphate_synthetase_(UPPS)_410283..410513_POSITIVE 307 66 23 162 119 aact:AA02049|5end_hypothetical_protein_1395526..1395756_POSITIVE 303 49 2 168 106 aact:AA01276|5end_heptosyltransferase_III_864730..864960_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 393 47 1 80 29 aact:AA00474|3end_cell_division_protein_Y_(GTP-binding_signal_recognition_particle)_331724..331874_POSITIVE 353 46 1 73 9 aact:AA02560|3end_integral_membrane_protein_1783630..1783780_POSITIVE 345 48 2 92 40 aact:AA01859|3end_hypothetical_protein_1251890..1252040_POSITIVE 328 57 14 78 43 aact:AA01357|3end_5-formyltetrahydrofolate_cyclo-ligase-family_protein_919785..919935_POSITIVE 317 49 5 63 1 aact:AA02506|3end_possible_transmembrane_protein_1740131..1740281_POSITIVE 313 50 2 102 40 aact:AA02801|3end_myo-inositol_catabolism_protein_1969073..1969223_POSITIVE 313 50 2 144 95 aact:AA01889|3end_conserved_hypothetical_protein_(possible_permease)_1274590..1274740_POSITIVE 312 47 3 44 5 aact:AA01865|3end_thiamin_ABC_transporter,_periplasmic-binding_protein_1253309..1253459_POSITIVE 307 66 23 135 92 aact:AA02048|3end_galactitol_utilization_operon_repressor_1395579..1395729_POSITIVE 291 47 5 104 56 aact:AA01666|3end_penicillin-binding_protein_4;_D-alanyl-D-alanine_carboxypeptidase;_D-alanyl-D-alanine-endopeptidase_1129621..1129771_POSITIVE 289 39 3 137 94 aact:AA02602|3end_conserved_hypothetical_protein_1814302..1814452_POSITIVE 283 42 4 144 101 aact:AA02874|3end_hypothetical_protein_2017899..2018049_POSITIVE 283 50 5 53 8 aact:AA02335|3end_6-O-methylguanine-DNA_methyltransferase_1597430..1597580_POSITIVE 281 42 1 92 51 aact:AA02598|3end_long-chain-fatty-acid-CoA_ligase_1810117..1810267_POSITIVE 281 50 5 64 16 aact:AA00544|3end_glutathionylspermidine_synthetase;amidase_373733..373883_POSITIVE 280 49 2 74 25 aact:AA02757|3end_histidinol-phosphate_aminotransferase_2_1931808..1931958_POSITIVE 280 43 5 47 9 aact:AA00605|3end_CDP-diglyceride_pyrophosphorylase_411876..412026_POSITIVE 279 48 1 69 19 aact:AA01681|3end_molybdate-binding_periplasmic_protein_1135670..1135820_POSITIVE 278 47 1 145 108 aact:AA01476|3end_hypothetical_protein_992261..992411_POSITIVE 278 50 5 121 93 aact:AA00603|3end_undecaprenyl_pyrophosphate_synthetase_(UPPS)_410992..411142_POSITIVE