Origin IGS: taaccttttcccacgggcaaaagtgcggtcgtttttccccacaaatttccttccaatcgcagaataacgccatataacagttgcaaaacaggcgttacaaccttaaactttagcactcaattttagtcagaaatatcgtccgtttt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aaaacggacgatatttctgactaaaattgagtgctaaagtttaaggttgtaacgcctgttttgcaactgttatatggcgttattctgcgattggaaggaaatttgtggggaaaaacgaccgcacttttgcccgtgggaaaaggtta Mask Tandem Repeat Region ================================================ taaccttttcccacgggcaaaagtgcggtcgtttttccccacaaatttccttccaatcgcagaataacgccatataacagttgcaaaacaggcgttacaaccttaaactttagcactcaattttagtcagaaatatcgtccgtttt Find is-nt database================================================ Query_seq: AA00101:AA00105|AA00101:AA00105:fimbrial biogenesis and twitching motility protein:conserved hypothetical protein:->->:74471..74616 146 taaccttttcccacgggcaaaagtgcggtcgtttttccccacaaatttccttccaatcgcagaataacgccatataacagttgcaaaacaggcgttacaaccttaaactttagcactcaattttagtcagaaatatcgtccgtttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA00101:AA00105|AA00101:AA00105:fimbrial biogenesis and twitching motility protein:conserved hypothetical protein:->->:74471..74616 146 taaccttttcccacgggcaaaagtgcggtcgtttttccccacaaatttccttccaatcgcagaataacgccatataacagttgcaaaacaggcgttacaaccttaaactttagcactcaattttagtcagaaatatcgtccgtttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA00101:AA00105|AA00101:AA00105:fimbrial biogenesis and twitching motility protein:conserved hypothetical protein:->->:74471..74616 146 taaccttttcccacgggcaaaagtgcggtcgtttttccccacaaatttccttccaatcgcagaataacgccatataacagttgcaaaacaggcgttacaaccttaaactttagcactcaattttagtcagaaatatcgtccgtttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taaccttttcccacgggcaaaagtgcggtcgtttttccccacaaatttccttccaatcgcagaataacgccatataacagttgcaaaacaggcgttacaaccttaaactttagcactcaattttagtcagaaatatcgtccgtttt Predict ORF larger than 30AA ================================================ Protein_Len: 38 Strand: - Start: 3 End: 116 .. G K G V P L L A T T K G W L N G E L R L I V G Y L L Q L V P T V V K F K L M .............................. Protein_Len: 30 Strand: - Start: 2 End: 91 . V K E W P C F H P R K E G C I E K W D C F L A M Y C N C F M ....................................................... taaccttttcccacgggcaaaagtgcggtcgtttttccccacaaatttccttccaatcgcagaataacgccatataacagttgcaaaacaggcgttacaaccttaaactttagcactcaattttagtcagaaatatcgtccgtttt 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================================================ taaccttttcccacgggcaaaagtgcggtcgtttttccccacaaatttccttccaatcgcagaataacgccatataacagttgcaaaacaggcgttacaaccttaaactttagcactcaattttagtcagaaatatcgtccgtttt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA00101:AA00105|AA00101:AA00105:fimbrial biogenesis and twitching motility protein:conserved hypothetical protein:->->:74471..74616 146 taaccttttcccacgggcaaaagtgcggtcgtttttccccacaaatttccttccaatcgcagaataacgccatataacagttgcaaaacaggcgttacaaccttaaactttagcactcaattttagtcagaaatatcgtccgtttt Intra-Species Hit: Count: 1 Min: 1 Max: 146 Len: 146 Subject: aact_AA00101_AA00105|fimbrial biogenesis and twitching motility protein:conserved hypothetical protein|POSITIVE:POSITIVE|[74471,74616]|146 HSP 1 e-value: 1.0E-77 bit: 289.0 Len: 146 Query Start:1 Query End:146 Subject Strand: POSITIVE Subject Start: 1 Subject End: 146 taaccttttcccacgggcaaaagtgcggtcgtttttccccacaaatttccttccaatcgcagaataacgccatataacagttgcaaaacaggcgttacaaccttaaactttagcactcaattttagtcagaaatatcgtccgtttt taaccttttcccacgggcaaaagtgcggtcgtttttccccacaaatttccttccaatcgcagaataacgccatataacagttgcaaaacaggcgttacaaccttaaactttagcactcaattttagtcagaaatatcgtccgtttt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAACCUUUUCCCACGGGCAAAAGUGCGGUCGUUUUUCCCCACAAAUUUCCUUCCAAUCGCAGAAUAACGCCAUAUAACAGUUGCAAAACAGGCGUUACAACCUUAAACUUUAGCACUCAAUUUUAGUCAGAAAUAUCGUCCGUUUU ............((((((...(((((((..((((........))))..))..............(((((((...................)))))))...............)))))..(((((.....)))))...))))))... (-23.31) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAAACGGACGAUAUUUCUGACUAAAAUUGAGUGCUAAAGUUUAAGGUUGUAACGCCUGUUUUGCAACUGUUAUAUGGCGUUAUUCUGCGAUUGGAAGGAAAUUUGUGGGGAAAAACGACCGCACUUUUGCCCGUGGGAAAAGGUUA .............(((((.((.......((((((..........(((((((((((((((...((....)).))).)))))).(((..(((.(........).)))..)))....))))))))))))......)).)))))...... (-31.12) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 395 56 11 85 27 aact:AA01271|5end_hypothetical_protein_863794..864024_POSITIVE 381 38 13 221 190 aact:AA01609|5end_p-aminobenzoate_synthase_component_I_homolog_1087903..1088133_POSITIVE 347 37 4 158 125 aact:AA01298|5end_competence_protein_D_880554..880784_POSITIVE 343 60 17 88 36 aact:AA02143|5end_hypothetical_protein_1467433..1467663_POSITIVE 341 36 5 172 134 aact:AA02410|5end_cell_division_protein_1655429..1655659_POSITIVE 341 60 17 195 154 aact:AA02162|5end_lipoprotein_1478950..1479180_POSITIVE 338 33 5 149 119 aact:AA01603|5end_oligopeptidase_A_1082898..1083128_POSITIVE 334 48 13 107 70 aact:AA02577|5end_nuclease_1795267..1795497_POSITIVE 334 60 12 192 138 aact:AA00485|5end_hypothetical_protein_336494..336724_POSITIVE 327 35 2 159 124 aact:AA02509|5end_chorismate_synthase_1740952..1741182_POSITIVE 326 54 13 219 179 aact:AA01524|5end_amino_acid_ABC_transporter,_ATP-binding_protein_1023500..1023730_POSITIVE 326 60 15 134 89 aact:AA01463|5end_probable_transport_protein_982732..982962_POSITIVE 323 41 14 141 113 aact:AA02885|5end_conserved_hypothetical_protein_2022428..2022658_POSITIVE 322 42 1 107 66 aact:AA02832|5end_outer_membrane_integrity_protein_1990044..1990274_POSITIVE 318 50 4 75 18 aact:AA01538|5end_conserved_hypothetical_protein_1031527..1031757_POSITIVE 317 52 13 128 88 aact:AA01286|5end_5,10-methylenetetrahydrofolate_dehydrogenase_(bifunctional_protein)_870309..870539_POSITIVE 316 70 21 194 154 aact:AA00311|5end_L-fuculose-phosphate_aldolase_211434..211664_POSITIVE 314 60 16 54 9 aact:AA01565|5end_conserved_hypothetical_protein_1050711..1050941_POSITIVE 313 36 10 197 171 aact:AA02395|5end_ATP-dependent_proteinase_1644613..1644843_POSITIVE 308 37 14 167 146 aact:AA01519|5end_conserved_hypothetical_protein_1021794..1022024_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 395 56 11 108 50 aact:AA01270|3end_hydrolase_(possible_2-haloalkanoic_acid_dehalogenase_I)_863897..864047_POSITIVE 347 37 4 135 102 aact:AA01297|3end_competence_protein_E_precursor_880611..880761_POSITIVE 343 60 17 107 55 aact:AA02142|3end_outer_membrane_protein_OprM_precursor_1467532..1467682_POSITIVE 341 36 5 67 29 aact:AA02409|3end_DNA_ligase_1655404..1655554_POSITIVE 341 60 17 94 53 aact:AA02160|3end_conserved_hypothetical_protein_1478929..1479079_POSITIVE 334 60 12 102 48 aact:AA00482|3end_hydrolase_(haloacid_dehalogenase-like)_(HAD_superfamily)_336484..336634_POSITIVE 330 65 21 120 60 aact:AA00716|3end_conserved_hypothetical_protein_491244..491394_POSITIVE 327 35 2 134 99 aact:AA02507|3end_penicillin-insensitive_murein_endopeptidase_A_1741007..1741157_POSITIVE 326 60 15 101 56 aact:AA01462|3end_xylose_operon_regulatory_protein_982779..982929_POSITIVE 323 41 14 60 32 aact:AA02883|3end_conserved_hypothetical_protein_2022427..2022577_POSITIVE 322 42 1 69 28 aact:AA02830|3end_colicin_tolerance_protein_1990086..1990236_POSITIVE 318 50 4 75 18 aact:AA01537|3end_possible_glucokinase_regulatory_protein_1031607..1031757_POSITIVE 308 37 14 84 63 aact:AA01517|3end_peptidyl-prolyl_cis-trans_isomerase;_macrophage_infectivity_protein_1021791..1021941_POSITIVE 307 36 3 62 27 aact:AA02962|3end_recombination_associated_protein_2072285..2072435_POSITIVE 306 55 12 63 12 aact:AA00146|3end_UDP-glucose/GDP-mannose_dehydrogenase_105944..106094_POSITIVE 305 48 10 144 98 aact:AA02217|3end_deoxyribose-phosphate_aldolase_1509835..1509985_POSITIVE 303 48 11 63 18 aact:AA00455|3end_lipoprotein_precursor_319385..319535_POSITIVE 299 60 19 67 6 aact:AA02446|3end_conserved_hypothetical_protein_1687583..1687733_POSITIVE 299 36 13 65 38 aact:AA00835|3end_UDP-N-acetylglucosamine-N-acetylmuramyl-(pentapep_tide)_576353..576503_POSITIVE 297 60 15 69 14 aact:AA00833|3end_UDP-N-acetylmuramate-alanine_ligase_575218..575368_POSITIVE