Origin IGS: taggaaaacatcggaaaaaatgaccgcacttttacggcgatatgcaaacaaaaaatcgcggtttttacgcaacgatttttctagaaattgtatgtgatta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taatcacatacaatttctagaaaaatcgttgcgtaaaaaccgcgattttttgtttgcatatcgccgtaaaagtgcggtcattttttccgatgttttccta Mask Tandem Repeat Region ================================================ taggaaaacatcggaaaaaatgaccgcacttttacggcgatatgcaaacaaaaaatcgcggtttttacgcaacgatttttctagaaattgtatgtgatta Find is-nt database================================================ Query_seq: AA02160:AA02162|AA02160:AA02162:conserved hypothetical protein:lipoprotein:->->:1478990..1479089 100 taggaaaacatcggaaaaaatgaccgcacttttacggcgatatgcaaacaaaaaatcgcggtttttacgcaacgatttttctagaaattgtatgtgatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA02160:AA02162|AA02160:AA02162:conserved hypothetical protein:lipoprotein:->->:1478990..1479089 100 taggaaaacatcggaaaaaatgaccgcacttttacggcgatatgcaaacaaaaaatcgcggtttttacgcaacgatttttctagaaattgtatgtgatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA02160:AA02162|AA02160:AA02162:conserved hypothetical protein:lipoprotein:->->:1478990..1479089 100 taggaaaacatcggaaaaaatgaccgcacttttacggcgatatgcaaacaaaaaatcgcggtttttacgcaacgatttttctagaaattgtatgtgatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taggaaaacatcggaaaaaatgaccgcacttttacggcgatatgcaaacaaaaaatcgcggtttttacgcaacgatttttctagaaattgtatgtgatta Predict ORF larger than 30AA ================================================ Protein_Len: 31 Strand: - Start: 1 End: 93 L F V D S F I V A S K R R Y A F L F D R N K R L S K E L F Q M ....... taggaaaacatcggaaaaaatgaccgcacttttacggcgatatgcaaacaaaaaatcgcggtttttacgcaacgatttttctagaaattgtatgtgatta 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================================================ taggaaaacatcggaaaaaatgaccgcacttttacggcgatatgcaaacaaaaaatcgcggtttttacgcaacgatttttctagaaattgtatgtgatta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA02160:AA02162|AA02160:AA02162:conserved hypothetical protein:lipoprotein:->->:1478990..1479089 100 taggaaaacatcggaaaaaatgaccgcacttttacggcgatatgcaaacaaaaaatcgcggtttttacgcaacgatttttctagaaattgtatgtgatta Intra-Species Hit: Count: 1 Min: 1 Max: 100 Len: 100 Subject: aact_AA02160_AA02162|conserved hypothetical protein:lipoprotein|POSITIVE:POSITIVE|[1478990, 1479089]|100 HSP 1 e-value: 2.0E-50 bit: 198.0 Len: 100 Query Start:1 Query End:100 Subject Strand: POSITIVE Subject Start: 1 Subject End: 100 taggaaaacatcggaaaaaatgaccgcacttttacggcgatatgcaaacaaaaaatcgcggtttttacgcaacgatttttctagaaattgtatgtgatta taggaaaacatcggaaaaaatgaccgcacttttacggcgatatgcaaacaaaaaatcgcggtttttacgcaacgatttttctagaaattgtatgtgatta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGGAAAACAUCGGAAAAAAUGACCGCACUUUUACGGCGAUAUGCAAACAAAAAAUCGCGGUUUUUACGCAACGAUUUUUCUAGAAAUUGUAUGUGAUUA ...((((((..(((.........)))..........(((((.............))))).)))))).((((((((((((....)))))))).)))).... (-17.82) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUCACAUACAAUUUCUAGAAAAAUCGUUGCGUAAAAACCGCGAUUUUUUGUUUGCAUAUCGCCGUAAAAGUGCGGUCAUUUUUUCCGAUGUUUUCCUA .................(((.((((.(((((.(.(((((..((((........)))).....((((((....))))))..))))).)))))))))).))) (-16.10) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 488 46 3 90 46 aact:AA02965|5end_hypothetical_protein_2074069..2074299_POSITIVE 422 45 3 138 90 aact:AA01692|5end_hexulose-6-phosphate_synthase_1149178..1149408_POSITIVE 410 32 3 132 103 aact:AA00075|5end_conserved_hypothetical_protein_54963..55193_POSITIVE 409 45 3 133 87 aact:AA01390|5end_LexA_repressor_937059..937289_POSITIVE 407 38 3 128 93 aact:AA01537|5end_possible_glucokinase_regulatory_protein_1030616..1030846_POSITIVE 397 38 1 132 95 aact:AA00511|5end_nicotinamide_mononucleotide_transporter_353884..354114_POSITIVE 380 48 3 190 149 aact:AA02144|5end_iron_(III)_ABC_transporter,_permease_protein_1467583..1467813_POSITIVE 371 33 1 116 84 aact:AA02654|5end_probable_lipopolysaccharide_biosynthesis_protein_1848523..1848753_POSITIVE 362 40 6 91 56 aact:AA00489|5end_hypothetical_protein_338812..339042_POSITIVE 361 42 11 182 151 aact:AA00117|5end_hypothetical_protein_88246..88476_POSITIVE 358 45 1 53 9 aact:AA01041|5end_hypothetical_protein_724853..725083_POSITIVE 357 59 12 159 108 aact:AA01988|5end_dihydrolipoamide_dehydrogenase;_lipoamide_dehydrogenase_1350517..1350747_POSITIVE 357 59 12 57 6 aact:AA01987|5end_hypothetical_protein_1350415..1350645_POSITIVE 357 40 3 207 167 aact:AA01471|5end_type_I_restriction_enzyme_M_(modification_chain)_987321..987551_POSITIVE 356 39 3 159 117 aact:AA00324|5end_tRNA_(Uracil-5-)-methyltransferase_(tRNA(M-5-U54)-methyltransferase)_220147..220377_POSITIVE 354 45 6 67 24 aact:AA02846|5end_crossover_junction_endodeoxyribonuclease_1998648..1998878_POSITIVE 354 48 1 150 99 aact:AA02814|5end_hypothetical_protein_1980180..1980410_POSITIVE 348 48 5 40 1 aact:AA02143|5end_hypothetical_protein_1467433..1467663_POSITIVE 348 48 2 132 79 aact:AA00160|5end_pilA-like_biogenesis_protein_/_prepilin_peptidase_dependent_proteinD_112836..113066_POSITIVE 347 45 1 142 92 aact:AA01603|5end_oligopeptidase_A_1082898..1083128_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 488 46 3 69 25 aact:AA02964|3end_opacity_associated_protein_A_2074128..2074278_POSITIVE 410 32 3 36 7 aact:AA00072|3end_conserved_hypothetical_protein_54947..55097_POSITIVE 397 38 1 51 14 aact:AA00508|3end_SAM-dependent_methyltransferase_353883..354033_POSITIVE 382 69 21 112 67 aact:AA00218|3end_argininosuccinate_lyase_152211..152361_POSITIVE 380 48 3 59 18 aact:AA02142|3end_outer_membrane_protein_OprM_precursor_1467532..1467682_POSITIVE 375 44 3 151 106 aact:AA01389|3end_hypothetical_protein_937158..937308_POSITIVE 371 33 1 104 72 aact:AA02652|3end_conserved_hypothetical_protein_1848591..1848741_POSITIVE 362 40 6 70 35 aact:AA00488|3end_purine_nucleoside_phosphorylase_338871..339021_POSITIVE 361 42 11 63 32 aact:AA00116|3end_conserved_hypothetical_protein_88207..88357_POSITIVE 358 45 1 66 22 aact:AA01040|3end_possible_lipoprotein_724946..725096_POSITIVE 357 59 12 62 11 aact:AA01986|3end_pyruvate_dehydrogenase_complex_E2_1350500..1350650_POSITIVE 354 45 5 93 49 aact:AA02462|3end_thiol_peroxidase_(scavengase)_1702673..1702823_POSITIVE 352 40 3 41 3 aact:AA00592|3end_conserved_hypothetical_protein_(membrane/transport_protein)_407286..407436_POSITIVE 348 48 2 151 98 aact:AA00158|3end_ampD_signalling_protein_(N-acetylmuramyl-L-alanine_amidase)_112935..113085_POSITIVE 347 60 11 56 12 aact:AA00612|3end_acyl-(acyl-carrier-protein)-UDP-N-acetylglucosami_ne_418705..418855_POSITIVE 345 39 1 55 14 aact:AA00399|3end_conserved_hypothetical_protein_268363..268513_POSITIVE 341 46 3 64 6 aact:AA01436|3end_fructose-bisphosphate_aldolase_class_II_964137..964287_POSITIVE 340 41 3 82 42 aact:AA02082|3end_glutaminyl-tRNA_synthetase_1417848..1417998_POSITIVE 339 39 21 95 77 aact:AA01347|3end_conserved_hypothetical_protein_913579..913729_POSITIVE 338 45 1 51 8 aact:AA02962|3end_recombination_associated_protein_2072285..2072435_POSITIVE