Origin IGS: cagccctgcttgctgcaccggggtttcaaaactttgcgcaatgtcggataacaaggcgacgggtaagaattcggtggtgttgaaaataaacgcggcaaatgccaataacacaacgcgaaaaaatttcaggcgtcgcacaatttttaaagagaccatatta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taatatggtctctttaaaaattgtgcgacgcctgaaattttttcgcgttgtgttattggcatttgccgcgtttattttcaacaccaccgaattcttacccgtcgccttgttatccgacattgcgcaaagttttgaaaccccggtgcagcaagcagggctg Mask Tandem Repeat Region ================================================ cagccctgcttgctgcaccggggtttcaaaactttgcgcaatgtcggataacaaggcgacgggtaagaattcggtggtgttgaaaataaacgcggcaaatgccaataacacaacgcgaaaaaatttcaggcgtcgcacaatttttaaagagaccatatta Find is-nt database================================================ Query_seq: AA00691:AA00692|AA00691:AA00692:conserved hypothetical protein (possible multidrug/sugar efflux transporter):conserved hypothetical protein:->->:473216..473375 160 cagccctgcttgctgcaccggggtttcaaaactttgcgcaatgtcggataacaaggcgacgggtaagaattcggtggtgttgaaaataaacgcggcaaatgccaataacacaacgcgaaaaaatttcaggcgtcgcacaatttttaaagagaccatatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA00691:AA00692|AA00691:AA00692:conserved hypothetical protein (possible multidrug/sugar efflux transporter):conserved hypothetical protein:->->:473216..473375 160 cagccctgcttgctgcaccggggtttcaaaactttgcgcaatgtcggataacaaggcgacgggtaagaattcggtggtgttgaaaataaacgcggcaaatgccaataacacaacgcgaaaaaatttcaggcgtcgcacaatttttaaagagaccatatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA00691:AA00692|AA00691:AA00692:conserved hypothetical protein (possible multidrug/sugar efflux transporter):conserved hypothetical protein:->->:473216..473375 160 cagccctgcttgctgcaccggggtttcaaaactttgcgcaatgtcggataacaaggcgacgggtaagaattcggtggtgttgaaaataaacgcggcaaatgccaataacacaacgcgaaaaaatttcaggcgtcgcacaatttttaaagagaccatatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 cagccctgcttgctgcaccggggtttcaaaactttgcgcaatgtcggataacaaggcgacgggtaagaattcggtggtgttgaaaataaacgcggcaaatgccaataacacaacgcgaaaaaatttcaggcgtcgcacaatttttaaagagaccatatta Predict ORF larger than 30AA ================================================ Protein_Len: 40 Strand: + Start: 41 End: 160 ........................................ M S D N K A T G K N S V V L K I N A A N A N N T T R K N F R R R T I F K E T I L Protein_Len: 32 Strand: - Start: 29 End: 124 ............................ F K A C H R I V L R R T L I R H H Q F Y V R C I G I V C R S F M .................................... Protein_Len: 37 Strand: - Start: 3 End: 113 .. G Q K S C R P K L V K R L T P Y C P S P Y S N P P T S F L R P L H W Y C M ............................................... Protein_Len: 52 Strand: - Start: 1 End: 156 L G A Q Q V P T E F S Q A I D S L L A V P L F E T T N F I F A A F A L L V V R F F K L R R V I K L S V M .... cagccctgcttgctgcaccggggtttcaaaactttgcgcaatgtcggataacaaggcgacgggtaagaattcggtggtgttgaaaataaacgcggcaaatgccaataacacaacgcgaaaaaatttcaggcgtcgcacaatttttaaagagaccatatta 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================================================ cagccctgcttgctgcaccggggtttcaaaactttgcgcaatgtcggataacaaggcgacgggtaagaattcggtggtgttgaaaataaacgcggcaaatgccaataacacaacgcgaaaaaatttcaggcgtcgcacaatttttaaagagaccatatta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA00691:AA00692|AA00691:AA00692:conserved hypothetical protein (possible multidrug/sugar efflux transporter):conserved hypothetical protein:->->:473216..473375 160 cagccctgcttgctgcaccggggtttcaaaactttgcgcaatgtcggataacaaggcgacgggtaagaattcggtggtgttgaaaataaacgcggcaaatgccaataacacaacgcgaaaaaatttcaggcgtcgcacaatttttaaagagaccatatta Intra-Species Hit: Count: 1 Min: 1 Max: 160 Len: 160 Subject: aact_AA00691_AA00692|conserved hypothetical protein (possible multidrug/sugar efflux transporter):conserved hypothetical protein|POSITIVE:POSITIVE|[473216,473375]|160 HSP 1 e-value: 6.0E-86 bit: 317.0 Len: 160 Query Start:1 Query End:160 Subject Strand: POSITIVE Subject Start: 1 Subject End: 160 cagccctgcttgctgcaccggggtttcaaaactttgcgcaatgtcggataacaaggcgacgggtaagaattcggtggtgttgaaaataaacgcggcaaatgccaataacacaacgcgaaaaaatttcaggcgtcgcacaatttttaaagagaccatatta cagccctgcttgctgcaccggggtttcaaaactttgcgcaatgtcggataacaaggcgacgggtaagaattcggtggtgttgaaaataaacgcggcaaatgccaataacacaacgcgaaaaaatttcaggcgtcgcacaatttttaaagagaccatatta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CAGCCCUGCUUGCUGCACCGGGGUUUCAAAACUUUGCGCAAUGUCGGAUAACAAGGCGACGGGUAAGAAUUCGGUGGUGUUGAAAAUAAACGCGGCAAAUGCCAAUAACACAACGCGAAAAAAUUUCAGGCGUCGCACAAUUUUUAAAGAGACCAUAUUA ((((.......))))......((((((.(((..(((.((.(((((.((...(((.((.((.((.......)).)).)).)))........((((((....)))...........)))........)).))))).)).)))..)))...))))))...... (-35.70) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUAUGGUCUCUUUAAAAAUUGUGCGACGCCUGAAAUUUUUUCGCGUUGUGUUAUUGGCAUUUGCCGCGUUUAUUUUCAACACCACCGAAUUCUUACCCGUCGCCUUGUUAUCCGACAUUGCGCAAAGUUUUGAAACCCCGGUGCAGCAAGCAGGGCUG .....((((.........(((.(..((((((..(((.....)))))))))..).)))(((....)))...............)))).................((((((((........((((((...(((....)))....))))))..)))))))).. (-32.70) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 452 47 3 195 147 aact:AA02731|5end_outer_membrane_lipoprotein_carrier_precursor_1911498..1911728_POSITIVE 387 47 3 62 18 aact:AA01056|5end_conserved_hypothetical_protein_733867..734097_POSITIVE 382 93 55 231 199 aact:AA01416|5end_2C-methyl-D-erythritol_2,4-cyclodiphosphate_952780..953010_POSITIVE 380 135 92 199 144 aact:AA01886|5end_UDP-glucose-4-epimerase_1271464..1271694_POSITIVE 380 63 24 146 113 aact:AA01119|5end_hypothetical_protein_769291..769521_POSITIVE 373 79 35 47 12 aact:AA02443|5end_cytochrome_C_related_protein_1686202..1686432_POSITIVE 370 95 54 84 46 aact:AA01588|5end_N-acetylmuramoyl-L-alanine_amidase_II_1068816..1069046_POSITIVE 363 80 34 125 61 aact:AA01424|5end_threonine_deaminase_(dehydratase)_957740..957970_POSITIVE 353 59 15 208 154 aact:AA01340|5end_possible_lipoprotein;_possible_HlyD_family_secretion_domain_protein;_possible_membrane_fusion_protein_905746..905976_POSITIVE 350 48 5 154 107 aact:AA00287|5end_glutamate_5-kinase_(gamma-glutamyl_kinase)_200158..200388_POSITIVE 349 47 1 61 8 aact:AA01755|5end_cobalt_membrane_transport_protein_1185825..1186055_POSITIVE 349 57 11 167 104 aact:AA01590|5end_hypothetical_protein_1070766..1070996_POSITIVE 347 60 11 213 159 aact:AA01820|5end_high-affinity_zinc_uptake_system_ATP-binding_protein_1225103..1225333_POSITIVE 338 46 3 215 172 aact:AA01336|5end_hypothetical_protein_904056..904286_POSITIVE 336 58 11 205 156 aact:AA00161|5end_pilin_B_biogenesis_protein;_fimbrial_transcription_regulation_113384..113614_POSITIVE 334 80 36 90 48 aact:AA02543|5end_conserved_hypothetical_protein_1772701..1772931_POSITIVE 334 80 36 158 114 aact:AA01429|5end_conserved_hypothetical_protein_959581..959811_POSITIVE 334 48 3 179 133 aact:AA00894|5end_selenium_transferase_(Cysteinyl-tRNA(Sec)_selenium_transferase)_619879..620109_POSITIVE 330 46 3 183 136 aact:AA01146|5end_conserved_hypothetical_protein_784433..784663_POSITIVE 329 60 11 141 104 aact:AA01375|5end_hypothetical_protein_931020..931250_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 387 47 3 55 11 aact:AA01054|3end_conserved_hypothetical_protein_733940..734090_POSITIVE 380 63 24 150 117 aact:AA01117|3end_signal_recognition_particle_protein_54_(GTP-binding_export_factor)_769375..769525_POSITIVE 373 79 35 37 2 aact:AA02442|3end_thioredoxin-family_protein_1686272..1686422_POSITIVE 370 95 54 81 43 aact:AA01586|3end_DNA_mismatch_repair_protein_1068893..1069043_POSITIVE 349 47 1 58 5 aact:AA01753|3end_conserved_hypothetical_protein_1185902..1186052_POSITIVE 347 60 11 108 54 aact:AA01818|3end_high-affinity_zinc_uptake_system_membrane_protein_1225078..1225228_POSITIVE 345 47 5 143 93 aact:AA00135|3end_S-adenosylmethionine:_2-demethylmenaquinone_methyltransferase_(menaquinone_biosynthesis_protein)_96880..97030_POSITIVE 334 80 36 122 78 aact:AA01428|3end_acetolactate_synthase_959625..959775_POSITIVE 330 46 3 130 83 aact:AA01145|3end_glycyl-tRNA_synthetase_alpha_subunit_784460..784610_POSITIVE 329 60 11 138 101 aact:AA01374|3end_tRNA/rRNA_methyltransferase_931097..931247_POSITIVE 325 59 14 58 7 aact:AA02156|3end_conserved_hypothetical_protein_1475326..1475476_POSITIVE 325 46 2 148 99 aact:AA01422|3end_cell_division_protein_E,_ABC_system_ATP-binding_protein_956736..956886_POSITIVE 325 46 3 95 52 aact:AA00448|3end_C-terminal_region_of_competence_protein_M_313058..313208_POSITIVE 325 78 36 62 12 aact:AA00361|3end_50S_ribosomal_protein_L16_244910..245060_POSITIVE 324 78 33 75 24 aact:AA02241|3end_molybdenum_cofactor_biosynthesis_protein_C_1524062..1524212_POSITIVE 320 38 7 129 98 aact:AA01001|3end_conserved_hypothetical_protein_699974..700124_POSITIVE 317 41 3 85 45 aact:AA01859|3end_hypothetical_protein_1251890..1252040_POSITIVE 316 46 2 148 99 aact:AA00131|3end_transcriptional_regulator_(MerR_family)_94984..95134_POSITIVE 314 79 31 126 78 aact:AA01291|3end_excinuclease_ABC_subunit_A_876001..876151_POSITIVE 313 45 6 149 111 aact:AA02046|3end_PTS_system_galactitol-specific_enzyme_IIC_1393687..1393837_POSITIVE