Origin IGS: ttcatgctcttttaaatccgagtaaatatgcgcatcaaaataaggtaataaaaaaataaagattagtaaaatggaaaatgtgagccagaagaaagtgaaaattcgtatggtgagtgagttaaaaataaattcttttctgaacatgataattcggtgtgaaaaaggctatataaaaatagcctttattgtta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taacaataaaggctatttttatatagcctttttcacaccgaattatcatgttcagaaaagaatttatttttaactcactcaccatacgaattttcactttcttctggctcacattttccattttactaatctttatttttttattaccttattttgatgcgcatatttactcggatttaaaagagcatgaa Mask Tandem Repeat Region ================================================ ttcatgctcttttaaatccgagtaaatatgcgcatcaaaataaggtaataaaaaaataaagattagtaaaatggaaaatgtgagccagaagaaagtgaaaattcgtatggtgagtgagttaaaaataaattcttttctgaacatgataattcggtgtgaaaaaggctatataaaaatagcctttattgtta Find is-nt database================================================ Query_seq: AA00995:AA00997|AA00995:AA00997:sensory transduction protein for cpxR/basR:response regulatory protein:->->:697737..697927 191 ttcatgctcttttaaatccgagtaaatatgcgcatcaaaataaggtaataaaaaaataaagattagtaaaatggaaaatgtgagccagaagaaagtgaaaattcgtatggtgagtgagttaaaaataaattcttttctgaacatgataattcggtgtgaaaaaggctatataaaaatagcctttattgtta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA00995:AA00997|AA00995:AA00997:sensory transduction protein for cpxR/basR:response regulatory protein:->->:697737..697927 191 ttcatgctcttttaaatccgagtaaatatgcgcatcaaaataaggtaataaaaaaataaagattagtaaaatggaaaatgtgagccagaagaaagtgaaaattcgtatggtgagtgagttaaaaataaattcttttctgaacatgataattcggtgtgaaaaaggctatataaaaatagcctttattgtta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA00995:AA00997|AA00995:AA00997:sensory transduction protein for cpxR/basR:response regulatory protein:->->:697737..697927 191 ttcatgctcttttaaatccgagtaaatatgcgcatcaaaataaggtaataaaaaaataaagattagtaaaatggaaaatgtgagccagaagaaagtgaaaattcgtatggtgagtgagttaaaaataaattcttttctgaacatgataattcggtgtgaaaaaggctatataaaaatagcctttattgtta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ttcatgctcttttaaatccgagtaaatatgcgcatcaaaataaggtaataaaaaaataaagattagtaaaatggaaaatgtgagccagaagaaagtgaaaattcgtatggtgagtgagttaaaaataaattcttttctgaacatgataattcggtgtgaaaaaggctatataaaaatagcctttattgtta Predict ORF larger than 30AA ================================================ Protein_Len: 45 Strand: + Start: 56 End: 190 ....................................................... M K I S K M E N V S Q K K V K I R M V S E L K I N S F L N M I I R C E K G Y I K I A F I V . Protein_Len: 50 Strand: - Start: 1 End: 150 E H E K L D S Y I H A D F Y P L L F I F I L L I S F T L W F F T F I R I T L S N F I F E K R F M I M ......................................... ttcatgctcttttaaatccgagtaaatatgcgcatcaaaataaggtaataaaaaaataaagattagtaaaatggaaaatgtgagccagaagaaagtgaaaattcgtatggtgagtgagttaaaaataaattcttttctgaacatgataattcggtgtgaaaaaggctatataaaaatagcctttattgtta 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================================================ ttcatgctcttttaaatccgagtaaatatgcgcatcaaaataaggtaataaaaaaataaagattagtaaaatggaaaatgtgagccagaagaaagtgaaaattcgtatggtgagtgagttaaaaataaattcttttctgaacatgataattcggtgtgaaaaaggctatataaaaatagcctttattgtta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA00995:AA00997|AA00995:AA00997:sensory transduction protein for cpxR/basR:response regulatory protein:->->:697737..697927 191 ttcatgctcttttaaatccgagtaaatatgcgcatcaaaataaggtaataaaaaaataaagattagtaaaatggaaaatgtgagccagaagaaagtgaaaattcgtatggtgagtgagttaaaaataaattcttttctgaacatgataattcggtgtgaaaaaggctatataaaaatagcctttattgtta Intra-Species Hit: Count: 1 Min: 1 Max: 191 Len: 191 Subject: aact_AA00995_AA00997|sensory transduction protein for cpxR/basR:response regulatory protein|POSITIVE:POSITIVE|[697737,697927]|191 HSP 1 e-value: 8.0E-92 bit: 337.0 Len: 191 Query Start:1 Query End:191 Subject Strand: POSITIVE Subject Start: 1 Subject End: 191 ttcatgctcttttaaatccgagtaaatatgcgcatcaaaataaggtaatnnnnnnntaaagattagtaaaatggaaaatgtgagccagaagaaagtgaaaattcgtatggtgagtgagttaaaaataaattcttttctgaacatgataattcggtgtgaaaaaggctatataaaaatagcctttattgtta ttcatgctcttttaaatccgagtaaatatgcgcatcaaaataaggtaataaaaaaataaagattagtaaaatggaaaatgtgagccagaagaaagtgaaaattcgtatggtgagtgagttaaaaataaattcttttctgaacatgataattcggtgtgaaaaaggctatataaaaatagcctttattgtta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUCAUGCUCUUUUAAAUCCGAGUAAAUAUGCGCAUCAAAAUAAGGUAAUAAAAAAAUAAAGAUUAGUAAAAUGGAAAAUGUGAGCCAGAAGAAAGUGAAAAUUCGUAUGGUGAGUGAGUUAAAAAUAAAUUCUUUUCUGAACAUGAUAAUUCGGUGUGAAAAAGGCUAUAUAAAAAUAGCCUUUAUUGUUA ....(((((..........)))))......((((((.......(.((((............)))).).....(((((......((((...(((........)))...))))....(((((.......))))).)))))..............))))))..(((((((((......)))))))))....... (-29.30) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAACAAUAAAGGCUAUUUUUAUAUAGCCUUUUUCACACCGAAUUAUCAUGUUCAGAAAAGAAUUUAUUUUUAACUCACUCACCAUACGAAUUUUCACUUUCUUCUGGCUCACAUUUUCCAUUUUACUAAUCUUUAUUUUUUUAUUACCUUAUUUUGAUGCGCAUAUUUACUCGGAUUUAAAAGAGCAUGAA .......(((((((((......)))))))))..............((((((((...(((((..(((....)))........(((...(((........)))...)))......................))))).................(((.(((.((..........)).))).))).)))))))). (-24.80) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 273 118 78 88 40 aact:AA00114|5end_peptidyl-prolyl_cis-trans_isomerase_D_(PPIase_D)_(rotamase_D)_82047..82277_POSITIVE 272 113 73 81 34 aact:AA02977|5end_1-acyl-sn-glycerol-3-phosphate_acyltransferase_2081068..2081298_POSITIVE 272 143 104 107 71 aact:AA02556|5end_methylglyoxal_synthase_1780472..1780702_POSITIVE 249 119 71 191 145 aact:AA02786|5end_ribose_ABC_transporter;_ATP-binding_1952812..1953042_POSITIVE 248 120 73 111 49 aact:AA00655|5end_hypothetical_protein_449300..449530_POSITIVE 247 97 55 60 20 aact:AA02928|5end_conserved_hypothetical_protein_2048361..2048591_POSITIVE 244 166 124 114 71 aact:AA02966|5end_conserved_hypothetical_protein_2074223..2074453_POSITIVE 241 120 77 151 106 aact:AA02099|5end_50S_ribosomal_protein_L25_1429639..1429869_POSITIVE 239 118 83 47 4 aact:AA01547|5end_deoxyribose-phosphate_aldolase_1036271..1036501_POSITIVE 237 67 28 170 140 aact:AA02919|5end_CagE_protein_(tranport-associated)_2044202..2044432_POSITIVE 235 119 71 182 125 aact:AA00715|5end_[2Fe-2S]_ferredoxin_490632..490862_POSITIVE 234 44 4 74 24 aact:AA02898|5end_oligopeptide_transport_ATP-binding_protein_2029083..2029313_POSITIVE 232 159 114 145 100 aact:AA02905|5end_conserved_hypothetical_protein_2032768..2032998_POSITIVE 231 180 132 171 122 aact:AA00717|5end_methionyl-tRNA_synthetase_491304..491534_POSITIVE 229 119 71 216 165 aact:AA00830|5end_cell_division_protein_A_570700..570930_POSITIVE 229 117 72 99 58 aact:AA00696|5end_iron(III)_ABC_transporter,_periplasmic_iron-compound-binding_protein_475989..476219_POSITIVE 229 120 71 45 3 aact:AA00569|5end_ketol-acid_reductoisomerase_391191..391421_POSITIVE 228 117 82 51 11 aact:AA02678|5end_formate_dehydrogenase,_gamma_subunit_1865021..1865251_POSITIVE 227 111 73 223 180 aact:AA00157|5end_hypothetical_protein_112119..112349_POSITIVE 225 120 84 88 59 aact:AA01423|5end_cell_division_protein_X,_ABC_system_permease_956668..956898_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 272 143 104 41 5 aact:AA02554|3end_conserved_hypothetical_protein_1780486..1780636_POSITIVE 249 119 71 137 91 aact:AA02785|3end_ribose_ABC_transporter,_permease_1952838..1952988_POSITIVE 244 166 124 97 54 aact:AA02965|3end_hypothetical_protein_2074286..2074436_POSITIVE 239 37 1 124 88 aact:AA02416|3end_conserved_hypothetical_protein_1659578..1659728_POSITIVE 237 36 2 140 99 aact:AA00987|3end_tetracenomycin_polyketide_synthesis_O-methyltransferase_690586..690736_POSITIVE 234 44 4 61 11 aact:AA02897|3end_oligopeptide_ABC_transporter;_permease_protein_2029150..2029300_POSITIVE 229 119 71 129 78 aact:AA00827|3end_cell_division_tubulin-like_protein_Z_570693..570843_POSITIVE 229 120 71 50 8 aact:AA00568|3end_hypothetical_protein_391276..391426_POSITIVE 228 117 82 55 15 aact:AA02677|3end_formate_dehydrogenase,_beta_subunit_1865105..1865255_POSITIVE 227 111 73 126 83 aact:AA00156|3end_hypothetical_protein_112102..112252_POSITIVE 225 120 84 76 47 aact:AA01422|3end_cell_division_protein_E,_ABC_system_ATP-binding_protein_956736..956886_POSITIVE 222 118 71 138 78 aact:AA02290|3end_cell_division_protein_J;_ribosomal_RNA_large_subunit_methyltransferase_J_1561988..1562138_POSITIVE 220 181 151 51 20 aact:AA00957|3end_porphobilinogen_deaminase_(hydroxymethylbilane_synthase)_661943..662093_POSITIVE 219 140 95 78 37 aact:AA01249|3end_conserved_hypothetical_protein_(possible_phosphoesterase)_850423..850573_POSITIVE 218 120 82 89 48 aact:AA00846|3end_cell_division_protein_L_585037..585187_POSITIVE 214 120 71 68 26 aact:AA01486|3end_ATP_synthase_F1,_subunit_alpha_1000178..1000328_POSITIVE 213 114 75 133 90 aact:AA00205|3end_ribose_ABC_transporter_protein_/_high_affinity_D-ribose_transport_protein_142658..142808_POSITIVE 212 34 6 140 105 aact:AA00275|3end_conserved_hypothetical_protein_193237..193387_POSITIVE 211 120 80 36 6 aact:AA02437|3end_integral_membrane_protein_1682664..1682814_POSITIVE 207 110 65 144 101 aact:AA01278|3end_hypothetical_protein_867725..867875_POSITIVE