Origin IGS: taatttgaagccccgcgaaaaacaccgtaaaatatgcccgcacttttcagcccatcagggcaaaaagtgcggttattcttttgagtgttttttaaggagaaaattaag .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 cttaattttctccttaaaaaacactcaaaagaataaccgcactttttgccctgatgggctgaaaagtgcgggcatattttacggtgtttttcgcggggcttcaaatta Mask Tandem Repeat Region ================================================ taatttgaagccccgcgaaaaacaccgtaaaatatgcccgcacttttcagcccatcagggcaaaaagtgcggttattcttttgagtgttttttaaggagaaaattaag Find is-nt database================================================ Query_seq: AA00417:AA00419|AA00417:AA00419:outer membrane lipoprotein precursor (probable D-methionine-binding lipoprotein):conserved hypothetical protein (possible phosphatidylethanolamine-binding protein):->->:284369..284476 108 taatttgaagccccgcgaaaaacaccgtaaaatatgcccgcacttttcagcccatcagggcaaaaagtgcggttattcttttgagtgttttttaaggagaaaattaag Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA00417:AA00419|AA00417:AA00419:outer membrane lipoprotein precursor (probable D-methionine-binding lipoprotein):conserved hypothetical protein (possible phosphatidylethanolamine-binding protein):->->:284369..284476 108 taatttgaagccccgcgaaaaacaccgtaaaatatgcccgcacttttcagcccatcagggcaaaaagtgcggttattcttttgagtgttttttaaggagaaaattaag Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA00417:AA00419|AA00417:AA00419:outer membrane lipoprotein precursor (probable D-methionine-binding lipoprotein):conserved hypothetical protein (possible phosphatidylethanolamine-binding protein):->->:284369..284476 108 taatttgaagccccgcgaaaaacaccgtaaaatatgcccgcacttttcagcccatcagggcaaaaagtgcggttattcttttgagtgttttttaaggagaaaattaag Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taatttgaagccccgcgaaaaacaccgtaaaatatgcccgcacttttcagcccatcagggcaaaaagtgcggttattcttttgagtgttttttaaggagaaaattaag Predict ORF larger than 30AA ================================================ Protein_Len: 34 Strand: + Start: 5 End: 106 .... M K P R E K H R K I C P H F S A H Q G K K C G Y S F E C F L R R K L .. Protein_Len: 34 Strand: - Start: 3 End: 104 .. N S A G R F V G Y F I G A S K L G D P C F T R N N K Q T N K L S F M .... taatttgaagccccgcgaaaaacaccgtaaaatatgcccgcacttttcagcccatcagggcaaaaagtgcggttattcttttgagtgttttttaaggagaaaattaag Predict Promoter with matrix: RpoD-15 score > 80================================================ Predict Promoter with matrix: RpoD-16 score > 80================================================ Predict Promoter with matrix: RpoD-17 score > 80================================================ PromScan Matrix: RpoD-17 Strand: + Score: 82 Start: 4 End: 33 ...TTTGAAGCCCCGCGAAAAACACCGTAAAAT........................................................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ taatttgaagccccgcgaaaaacaccgtaaaatatgcccgcacttttcagcccatcagggcaaaaagtgcggttattcttttgagtgttttttaaggagaaaattaag Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 84 HP_score: -9.8 Tail_Score: -4.2651 Start: 35 End: 75 Full_Region: AAACACCGTAAAATA TGCCCGCACTTTTCAGCCC ATCA GGGCAAAAAGTGCGGTTA TTCTTTTGAGTGTTT ..................................TGCCCGCACTTTTCAGCCCATCAGGGCAAAAAGTGCGGTTA................................. TransTerm Strand: + Conf: 100 HP_score: -13.7 Tail_Score: -4.22475 Start: 38 End: 72 Full_Region: CACCGTAAAATATGC CCGCACTTTTCAGCCC ATCA GGGCAAAAAGTGCGG TTATTCTTTTGAGTG .....................................CCGCACTTTTCAGCCCATCAGGGCAAAAAGTGCGG.................................... Find igs database================================================ Query_seq: AA00417:AA00419|AA00417:AA00419:outer membrane lipoprotein precursor (probable D-methionine-binding lipoprotein):conserved hypothetical protein (possible phosphatidylethanolamine-binding protein):->->:284369..284476 108 taatttgaagccccgcgaaaaacaccgtaaaatatgcccgcacttttcagcccatcagggcaaaaagtgcggttattcttttgagtgttttttaaggagaaaattaag Intra-Species Hit: Count: 1 Min: 1 Max: 108 Len: 108 Subject: aact_AA00417_AA00419|outer membrane lipoprotein precursor (probable D-methionine-binding lipoprotein):conserved hypothetical protein (possible phosphatidylethanolamine-binding protein)|POSITIVE:POSITIVE|[284369,284476]|108 HSP 1 e-value: 4.0E-55 bit: 214.0 Len: 108 Query Start:1 Query End:108 Subject Strand: POSITIVE Subject Start: 1 Subject End: 108 taatttgaagccccgcgaaaaacaccgtaaaatatgcccgcacttttcagcccatcagggcaaaaagtgcggttattcttttgagtgttttttaaggagaaaattaag taatttgaagccccgcgaaaaacaccgtaaaatatgcccgcacttttcagcccatcagggcaaaaagtgcggttattcttttgagtgttttttaaggagaaaattaag Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUUUGAAGCCCCGCGAAAAACACCGUAAAAUAUGCCCGCACUUUUCAGCCCAUCAGGGCAAAAAGUGCGGUUAUUCUUUUGAGUGUUUUUUAAGGAGAAAAUUAAG ((((((....(.((..(((((((((((.(((..(((.((((((((((..((((....)))).)))))))))).)))..))))).)))))))))..)).).)))))).. (-37.60) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CUUAAUUUUCUCCUUAAAAAACACUCAAAAGAAUAACCGCACUUUUUGCCCUGAUGGGCUGAAAAGUGCGGGCAUAUUUUACGGUGUUUUUCGCGGGGCUUCAAAUUA ..((((((.((((...(((((((((....((((((.(((((((((((((((....)))).)))))))))))...))))))..)))))))))...))))....)))))) (-39.20) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 476 77 34 169 125 aact:AA02410|5end_cell_division_protein_1655429..1655659_POSITIVE 464 76 34 70 31 aact:AA02250|5end_possible_cytochrome_c-type_protein_1530125..1530355_POSITIVE 434 80 38 108 70 aact:AA01986|5end_pyruvate_dehydrogenase_complex_E2_1348753..1348983_POSITIVE 433 99 58 161 115 aact:AA00308|5end_glycerol-3-phosphate_regulon_repressor_208337..208567_POSITIVE 414 77 34 149 110 aact:AA01603|5end_oligopeptidase_A_1082898..1083128_POSITIVE 409 77 34 147 109 aact:AA01936|5end_tyrosyl-tRNA_synthetase_1307043..1307273_POSITIVE 409 77 36 140 101 aact:AA00047|5end_formate_dependent_nitrite_reductase,_cytochrome_c552_36753..36983_POSITIVE 402 67 21 135 87 aact:AA00160|5end_pilA-like_biogenesis_protein_/_prepilin_peptidase_dependent_proteinD_112836..113066_POSITIVE 396 97 59 136 99 aact:AA01364|5end_hypothetical_protein_922661..922891_POSITIVE 393 77 33 208 167 aact:AA02288|5end_conserved_hypothetical_protein_1558590..1558820_POSITIVE 373 80 38 168 131 aact:AA00409|5end_methionyl-tRNA_formyltransferase_273611..273841_POSITIVE 369 79 35 231 186 aact:AA00770|5end_outer_membrane_protein_precursor_530788..531018_POSITIVE 367 90 43 124 74 aact:AA02060|5end_cardiolipin_synthase_1401956..1402186_POSITIVE 366 59 13 64 19 aact:AA01517|5end_peptidyl-prolyl_cis-trans_isomerase;_macrophage_infectivity_protein_1020989..1021219_POSITIVE 365 77 36 139 94 aact:AA01117|5end_signal_recognition_particle_protein_54_(GTP-binding_export_factor)_767919..768149_POSITIVE 365 48 6 111 69 aact:AA01008|5end_mazG_beta-lactamase_regulatory_protein_homolog_703470..703700_POSITIVE 365 61 21 166 110 aact:AA00422|5end_LapB_membrane_protein_285528..285758_POSITIVE 363 99 51 205 156 aact:AA01793|5end_conserved_hypothetical_protein_1208627..1208857_POSITIVE 358 90 41 208 143 aact:AA01284|5end_heat_shock_protein_(hsp60)_868574..868804_POSITIVE 358 49 10 139 96 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 476 77 34 64 20 aact:AA02409|3end_DNA_ligase_1655404..1655554_POSITIVE 434 80 38 76 38 aact:AA01985|3end_pyruvate_dehydrogenase,_E1_component_1348801..1348951_POSITIVE 433 99 58 82 36 aact:AA00306|3end_nitrogen_regulatory_protein_p-II_208338..208488_POSITIVE 418 72 38 53 19 aact:AA00417|3end_outer_membrane_lipoprotein_precursor_(probable_D-methionine-binding_lipoprotein)_284308..284458_POSITIVE 409 77 36 63 24 aact:AA00046|3end_formate_dependent_nitrite_reductase,_cytochrome-c_type_protein_36756..36906_POSITIVE 396 97 59 132 95 aact:AA01363|3end_hypothetical_protein_922737..922887_POSITIVE 393 77 33 74 33 aact:AA02286|3end_sugar_ABC_transporter,_ATP-binding_protein_1558536..1558686_POSITIVE 367 90 43 59 9 aact:AA02057|3end_phosphoglycerate_mutase_1401971..1402121_POSITIVE 366 80 38 106 68 aact:AA02135|3end_hypothetical_protein_1459067..1459217_POSITIVE 366 80 38 122 84 aact:AA02135.1|3end_hypothetical_protein_1459083..1459233_POSITIVE 365 61 21 64 8 aact:AA00420|3end_tRNA/rRNA_methyltransferase_285506..285656_POSITIVE 363 99 51 85 36 aact:AA01792|3end_conserved_hypothetical_protein_1208587..1208737_POSITIVE 358 90 41 84 19 aact:AA01280|3end_groES_chaperonin_868530..868680_POSITIVE 357 46 10 149 109 aact:AA01025|3end_hypothetical_protein_717769..717919_POSITIVE 355 64 21 151 106 aact:AA00158|3end_ampD_signalling_protein_(N-acetylmuramyl-L-alanine_amidase)_112935..113085_POSITIVE 350 90 46 88 45 aact:AA01900|3end_hypothetical_protein_1282582..1282732_POSITIVE 348 75 40 74 39 aact:AA02167|3end_hypothetical_protein_1483474..1483624_POSITIVE 344 90 41 128 81 aact:AA01434|3end_conserved_hypothetical_protein_(possible_o-antigen_ligase)_963021..963171_POSITIVE 344 70 30 65 24 aact:AA00601|3end_hypothetical_protein_409119..409269_POSITIVE 337 97 58 80 39 aact:AA00391|3end_arsenate_reductase_265248..265398_POSITIVE