Origin IGS: tactcaagaaaccaaggggaatagatctccttaaaataaggaaggaaaaggccatgaacagtggggagcaaagcgaatcctagctgtctcaagccttatagaagaac .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 gttcttctataaggcttgagacagctaggattcgctttgctccccactgttcatggccttttccttccttattttaaggagatctattccccttggtttcttgagta Mask Tandem Repeat Region ================================================ tactcaagaaaccaaggggaatagatctccttaaaataaggaaggaaaaggccatgaacagtggggagcaaagcgaatcctagctgtctcaagccttatagaagaac Find is-nt database================================================ Query_seq: SSA_0576:SSA_0577|SSA_0576:SSA_0577:Conserved GTPase, putative:Ancient RNA-binding IF3-C fold (CRS1/YhbY domain), putative:->->:571286..571392 107 tactcaagaaaccaaggggaatagatctccttaaaataaggaaggaaaaggccatgaacagtggggagcaaagcgaatcctagctgtctcaagccttatagaagaac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SSA_0576:SSA_0577|SSA_0576:SSA_0577:Conserved GTPase, putative:Ancient RNA-binding IF3-C fold (CRS1/YhbY domain), putative:->->:571286..571392 107 tactcaagaaaccaaggggaatagatctccttaaaataaggaaggaaaaggccatgaacagtggggagcaaagcgaatcctagctgtctcaagccttatagaagaac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SSA_0576:SSA_0577|SSA_0576:SSA_0577:Conserved GTPase, putative:Ancient RNA-binding IF3-C fold (CRS1/YhbY domain), putative:->->:571286..571392 107 tactcaagaaaccaaggggaatagatctccttaaaataaggaaggaaaaggccatgaacagtggggagcaaagcgaatcctagctgtctcaagccttatagaagaac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tactcaagaaaccaaggggaatagatctccttaaaataaggaaggaaaaggccatgaacagtggggagcaaagcgaatcctagctgtctcaagccttatagaagaac Predict ORF larger than 30AA ================================================ Protein_Len: 30 Strand: - Start: 3 End: 92 .. E L F W P S Y I E K F Y P L F L G H V T P L L A F G L Q R M ............... tactcaagaaaccaaggggaatagatctccttaaaataaggaaggaaaaggccatgaacagtggggagcaaagcgaatcctagctgtctcaagccttatagaagaac 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================================================ tactcaagaaaccaaggggaatagatctccttaaaataaggaaggaaaaggccatgaacagtggggagcaaagcgaatcctagctgtctcaagccttatagaagaac Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SSA_0576:SSA_0577|SSA_0576:SSA_0577:Conserved GTPase, putative:Ancient RNA-binding IF3-C fold (CRS1/YhbY domain), putative:->->:571286..571392 107 tactcaagaaaccaaggggaatagatctccttaaaataaggaaggaaaaggccatgaacagtggggagcaaagcgaatcctagctgtctcaagccttatagaagaac Intra-Species Hit: Count: 1 Min: 1 Max: 107 Len: 107 Subject: NC_009009_SSA_0576_SSA_0577|Conserved GTPase, putative:Ancient RNA-binding IF3-C fold (CRS1/YhbY domain), putative|POSITIVE:POSITIVE|[571286,571392]|107 HSP 1 e-value: 2.0E-54 bit: 212.0 Len: 107 Query Start:1 Query End:107 Subject Strand: POSITIVE Subject Start: 1 Subject End: 107 tactcaagaaaccaaggggaatagatctccttaaaataaggaaggaaaaggccatgaacagtggggagcaaagcgaatcctagctgtctcaagccttatagaagaac tactcaagaaaccaaggggaatagatctccttaaaataaggaaggaaaaggccatgaacagtggggagcaaagcgaatcctagctgtctcaagccttatagaagaac Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UACUCAAGAAACCAAGGGGAAUAGAUCUCCUUAAAAUAAGGAAGGAAAAGGCCAUGAACAGUGGGGAGCAAAGCGAAUCCUAGCUGUCUCAAGCCUUAUAGAAGAAC ...((........(((((((.....)))))))...............(((((..((((((((.((((..........)))).))))).))).)))))...))..... (-26.10) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GUUCUUCUAUAAGGCUUGAGACAGCUAGGAUUCGCUUUGCUCCCCACUGUUCAUGGCCUUUUCCUUCCUUAUUUUAAGGAGAUCUAUUCCCCUUGGUUUCUUGAGUA .............(((..(((.(((((((....(((..((........))....))).......(((((((...)))))))..........))))))))))..))). (-22.70) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 321 87 41 231 186 NC_009009:SSA_0424|5end_Exopolysaccharide_biosynthesis_protein,_putative_422233..422463_NEGATIVE 313 94 51 231 186 NC_009009:SSA_0089|5end_V-type_sodium_ATPase,_subunit_F,_putative_89930..90160_POSITIVE 308 95 51 55 12 NC_009009:SSA_0637|5end_Tryptophan_synthase_beta_chain,_putative_625719..625949_POSITIVE 297 84 43 224 180 NC_009009:SSA_2299|5end_hypothetical_protein_2301545..2301775_NEGATIVE 297 95 52 225 170 NC_009009:SSA_0090|5end_Acetyltransferase,_GNAT_family,_putative_90258..90488_POSITIVE 295 89 50 222 191 NC_009009:SSA_0883|5end_Glycerate_kinase,_putative_877560..877790_POSITIVE 295 95 51 166 118 NC_009009:SSA_0744|5end_S-adenosylmethio_nine:tRNA-ribosyltransferase-isomerase_(queuine_synthetase),_putative_726804..727034_NEGATIVE 292 88 42 68 17 NC_009009:SSA_1154|5end_hypothetical_protein_1182661..1182891_POSITIVE 290 98 59 56 21 NC_009009:SSA_0680|5end_Serine/threonine_protein_phosphatase,_putative_662425..662655_POSITIVE 290 95 57 89 53 NC_009009:SSA_0005|5end_GTP-binding_protein,_putative_3821..4051_POSITIVE 289 74 38 201 165 NC_009009:SSA_0380|5end_Enzyme_of_poly-gamma-glutamate_biosynthesis_(capsule_formation),_putative_370916..371146_POSITIVE 288 96 51 97 45 NC_009009:SSA_0051|5end_Dihydroxyacetone_kinase_phosphotransfer_protein,_putative_55190..55420_POSITIVE 286 95 59 40 2 NC_009009:SSA_0778|5end_Glycogen_synthase,_putative_760566..760796_POSITIVE 284 88 50 174 138 NC_009009:SSA_0929|5end_ABC-type_multidrug_transporter,_ATPase_and_permease_components,_putative_938438..938668_POSITIVE 280 89 43 198 143 NC_009009:SSA_1794|5end_Two-component_response_transcriptional_regulator_(CheY-like_receiver_and_winged-helix_DNA-binding_domains),_putative_1777049..1777279_NEGATIVE 276 70 23 75 21 NC_009009:SSA_1443|5end_1-(5-phosphoribosyl)-5-[(5-_phosphoribosylamino)methylideneamino]_imidazole-4-carboxamide_isomerase,_putative_1446672..1446902_NEGATIVE 276 98 52 63 4 NC_009009:SSA_1374|5end_Multidrug_ABC_transporter,_ATPase_and_permease_components,_putative_1393095..1393325_NEGATIVE 275 95 51 230 187 NC_009009:SSA_2131|5end_DNA-binding_protein,_putative_2133949..2134179_POSITIVE 274 88 49 182 144 NC_009009:SSA_0621|5end_SOS_responce_UmuC_protein,_putative_613737..613967_NEGATIVE 273 89 60 59 32 NC_009009:SSA_1337|5end_hypothetical_protein_1351091..1351321_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 308 95 51 65 22 NC_009009:SSA_0636|3end_N-(5'-phosphoribosyl)anthranilate_isomerase,_putative_625809..625959_POSITIVE 303 95 55 43 1 NC_009009:SSA_0777|3end_Glycogen_biosynthesis_protein_GlgD,_putative_760649..760799_POSITIVE 296 98 51 73 4 NC_009009:SSA_1375|3end_Multidrug_ABC_transporter,_ATPase_and_permease_components,_putative_1393085..1393235_NEGATIVE 292 88 42 75 24 NC_009009:SSA_1153|3end_HemK_protein,_putative_1182748..1182898_POSITIVE 289 74 38 38 2 NC_009009:SSA_0379|3end_PTS_system,_beta-glucoside-specific_EII_component,_putative_370833..370983_POSITIVE 288 96 51 97 45 NC_009009:SSA_0050|3end_Dihydroxyacetone_kinase,_phosphatase_domain_(Dak2),_putative_55270..55420_POSITIVE 279 74 39 146 106 NC_009009:SSA_0956|3end_surface_protein_D_965418..965568_POSITIVE 278 89 46 80 45 NC_009009:SSA_2271|3end_hypothetical_protein_2272238..2272388_NEGATIVE 276 70 23 103 49 NC_009009:SSA_1444|3end_Imidazole_glycerol-phosphate_synthase_subunit_hisH,_putative_1446644..1446794_NEGATIVE 268 94 51 61 22 NC_009009:SSA_1077|3end_N-acetyl-glucosamine_matabolism,_putative_1095829..1095979_POSITIVE 267 70 26 62 13 NC_009009:SSA_1164|3end_hypothetical_protein_1191007..1191157_NEGATIVE 267 95 60 39 4 NC_009009:SSA_0388|3end_Mismatch_repair_ATPase_(MutS_family),_putative_384248..384398_POSITIVE 262 89 43 88 44 NC_009009:SSA_0705|3end_hypothetical_protein_690552..690702_NEGATIVE 262 84 43 149 108 NC_009009:SSA_0036|3end_Secreted_protein,_possible_function_in_cell-wall_metabolism_(amidase),_putative_42050..42200_NEGATIVE 261 99 62 39 3 NC_009009:SSA_0671|3end_Methylenetetrahydrofolate_dehydrogenase/methenyltetrahydrofolate_cyclohydrolase,_putative_655274..655424_POSITIVE 259 70 21 76 30 NC_009009:SSA_0826|3end_hypothetical_protein_805516..805666_POSITIVE 259 97 52 45 1 NC_009009:SSA_0421|3end_Phosphoglycerate_mutase_family_protein,_putative_420240..420390_POSITIVE 258 96 51 83 43 NC_009009:SSA_0679|3end_DNA_repair_and_genetic_recombination,_putative_662452..662602_POSITIVE 257 89 43 65 11 NC_009009:SSA_2077|3end_hypothetical_protein_2081352..2081502_NEGATIVE 257 88 43 141 96 NC_009009:SSA_0351|3end_Signal_peptidase_I,_putative_344278..344428_NEGATIVE