Origin IGS: ttattttgggaagttcagaaaagctagatgatgtttgctttatctgttctccttgctagtttagattacaaaacccctctttccatattttggaaagaggggttttttgtc .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 gacaaaaaacccctctttccaaaatatggaaagaggggttttgtaatctaaactagcaaggagaacagataaagcaaacatcatctagcttttctgaacttcccaaaataa Mask Tandem Repeat Region ================================================ ttattttgggaagttcagaaaagctagatgatgtttgctttatctgttctccttgctagtttagattacaaaacccctctttccatattttggaaagaggggttttttgtc Find is-nt database================================================ Query_seq: SSA_0767:SSA_0768|SSA_0767:SSA_0768:Diacylglycerol kinase catalytic domain protein, putative:Ribonucleoside-diphosphate reductase 2, beta subunit, putative:-><-:748115..748225 111 ttattttgggaagttcagaaaagctagatgatgtttgctttatctgttctccttgctagtttagattacaaaacccctctttccatattttggaaagaggggttttttgtc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SSA_0767:SSA_0768|SSA_0767:SSA_0768:Diacylglycerol kinase catalytic domain protein, putative:Ribonucleoside-diphosphate reductase 2, beta subunit, putative:-><-:748115..748225 111 ttattttgggaagttcagaaaagctagatgatgtttgctttatctgttctccttgctagtttagattacaaaacccctctttccatattttggaaagaggggttttttgtc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SSA_0767:SSA_0768|SSA_0767:SSA_0768:Diacylglycerol kinase catalytic domain protein, putative:Ribonucleoside-diphosphate reductase 2, beta subunit, putative:-><-:748115..748225 111 ttattttgggaagttcagaaaagctagatgatgtttgctttatctgttctccttgctagtttagattacaaaacccctctttccatattttggaaagaggggttttttgtc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ttattttgggaagttcagaaaagctagatgatgtttgctttatctgttctccttgctagtttagattacaaaacccctctttccatattttggaaagaggggttttttgtc Predict ORF larger than 30AA ================================================ ttattttgggaagttcagaaaagctagatgatgtttgctttatctgttctccttgctagtttagattacaaaacccctctttccatattttggaaagaggggttttttgtc 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================================================ ttattttgggaagttcagaaaagctagatgatgtttgctttatctgttctccttgctagtttagattacaaaacccctctttccatattttggaaagaggggttttttgtc Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SSA_0767:SSA_0768|SSA_0767:SSA_0768:Diacylglycerol kinase catalytic domain protein, putative:Ribonucleoside-diphosphate reductase 2, beta subunit, putative:-><-:748115..748225 111 ttattttgggaagttcagaaaagctagatgatgtttgctttatctgttctccttgctagtttagattacaaaacccctctttccatattttggaaagaggggttttttgtc Intra-Species Hit: Count: 1 Min: 1 Max: 111 Len: 111 Subject: NC_009009_SSA_0767_SSA_0768|Diacylglycerol kinase catalytic domain protein, putative:Ribonucleoside-diphosphate reductase 2, beta subunit, putative|POSITIVE:NEGATIVE|[748115,748225]|111 HSP 1 e-value: 7.0E-57 bit: 220.0 Len: 111 Query Start:1 Query End:111 Subject Strand: POSITIVE Subject Start: 1 Subject End: 111 ttattttgggaagttcagaaaagctagatgatgtttgctttatctgttctccttgctagtttagattacaaaacccctctttccatattttggaaagaggggttttttgtc ttattttgggaagttcagaaaagctagatgatgtttgctttatctgttctccttgctagtttagattacaaaacccctctttccatattttggaaagaggggttttttgtc Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUAUUUUGGGAAGUUCAGAAAAGCUAGAUGAUGUUUGCUUUAUCUGUUCUCCUUGCUAGUUUAGAUUACAAAACCCCUCUUUCCAUAUUUUGGAAAGAGGGGUUUUUUGUC .......((((.(..(((((((((.((((...))))))))).))))..)))))..........(((...((((((((((((((((.....))))))))))))))))..))) (-40.30) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GACAAAAAACCCCUCUUUCCAAAAUAUGGAAAGAGGGGUUUUGUAAUCUAAACUAGCAAGGAGAACAGAUAAAGCAAACAUCAUCUAGCUUUUCUGAACUUCCCAAAAUAA ((...((((((((((((((((.....))))))))))))))))....))...........((((..((((.(((((............)))))))))..))))......... (-36.50) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 302 57 13 198 158 NC_009009:SSA_0476|5end_Precorrin-2_C20-methyltransferase,_putative_478500..478730_POSITIVE 298 68 23 114 68 NC_009009:SSA_1374|5end_Multidrug_ABC_transporter,_ATPase_and_permease_components,_putative_1393095..1393325_NEGATIVE 285 76 32 214 165 NC_009009:SSA_0102|5end_Kinase,_putative_104035..104265_POSITIVE 280 108 74 125 93 NC_009009:SSA_0911|5end_hypothetical_protein_922078..922308_POSITIVE 273 59 13 107 57 NC_009009:SSA_0555|5end_Conserved_hypothetical_cytosolic_protein_549615..549845_POSITIVE 271 107 63 135 87 NC_009009:SSA_2088|5end_Carbohydrate_isomerase,_AraD/FucA_family,_putative_2093476..2093706_NEGATIVE 270 67 24 106 61 NC_009009:SSA_2029|5end_Transposase_and_inactivated_derivatives,_putative_2036028..2036258_NEGATIVE 270 65 22 164 132 NC_009009:SSA_0088|5end_V-type_sodium_ATPase,_subunit_C,_putative_88930..89160_POSITIVE 265 64 34 201 162 NC_009009:SSA_1505|5end_hypothetical_protein_1509555..1509785_NEGATIVE 261 102 66 207 166 NC_009009:SSA_1759|5end_hypothetical_protein_1746969..1747199_NEGATIVE 259 62 22 170 124 NC_009009:SSA_1804|5end_NADPH-flavin_oxidoreductase,_putative_1788668..1788898_NEGATIVE 257 58 12 107 55 NC_009009:SSA_1109|5end_ABC_transporter_ATP_binding/permease_protein,_putative_1133718..1133948_POSITIVE 255 80 35 167 117 NC_009009:SSA_0797|5end_Transcriptional_regulator,_putative_779521..779751_POSITIVE 254 70 23 129 67 NC_009009:SSA_2166|5end_ABC-type_multidrug_transporter,_ATPase_and_permease_components,_putative_2165642..2165872_NEGATIVE 254 57 12 200 156 NC_009009:SSA_0826|5end_hypothetical_protein_805098..805328_POSITIVE 253 70 35 121 77 NC_009009:SSA_0520|5end_Ethanolamine_ammonia-lyase_light_chain,_putative_519462..519692_POSITIVE 247 56 15 183 141 NC_009009:SSA_1824|5end_hypothetical_protein_1812746..1812976_NEGATIVE 245 102 62 158 108 NC_009009:SSA_0228|5end_hypothetical_protein_223363..223593_POSITIVE 243 94 52 65 16 NC_009009:SSA_2008|5end_Molecular_chaperone_GrpE_(HSP-70_cofactor),_putative_2010062..2010292_NEGATIVE 243 55 15 112 40 NC_009009:SSA_1764|5end_hypothetical_protein_1750868..1751098_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 298 68 23 124 78 NC_009009:SSA_1375|3end_Multidrug_ABC_transporter,_ATPase_and_permease_components,_putative_1393085..1393235_NEGATIVE 280 108 74 128 96 NC_009009:SSA_0910|3end_ABC-type_multidrug_transporter,_ATPase_component,_putative_922161..922311_POSITIVE 273 59 13 104 54 NC_009009:SSA_0554|3end_hypothetical_protein_549692..549842_POSITIVE 271 107 63 135 87 NC_009009:SSA_2089|3end_L-xylulose-5-phosphate_3-epimerase,_putative_2093476..2093626_NEGATIVE 266 59 22 148 121 NC_009009:SSA_0087|3end_V-type_sodium_ATPase,_subunit_E,_putative_88999..89149_POSITIVE 265 110 76 133 96 NC_009009:SSA_1318|3end_GTP-binding_protein_lepA,_putative_1333989..1334139_NEGATIVE 261 102 66 50 9 NC_009009:SSA_1760|3end_hypothetical_protein_1747126..1747276_NEGATIVE 257 58 12 93 41 NC_009009:SSA_1107|3end_Lipid/multidrug/protein-type_ABC_exporter,_ATP_binding/membrane-spanning_protein,_putative_1133784..1133934_POSITIVE 254 70 23 127 65 NC_009009:SSA_2167|3end_ABC-type_multidrug_transporter,_ATPase_and_permease_components,_putative_2165644..2165794_NEGATIVE 254 57 12 78 34 NC_009009:SSA_0825|3end_DNA-directed_RNA_polymerase,_sigma_subunit_(sigma70/sigma32),_putative_805056..805206_POSITIVE 254 57 12 81 38 NC_009009:SSA_0492|3end_NADH-dependent_flavin_oxidoreductase,_putative_492771..492921_POSITIVE 253 70 35 104 60 NC_009009:SSA_0519|3end_Ethanolamine_ammonia-lyase_large_subunit,_putative_519525..519675_POSITIVE 251 54 12 111 73 NC_009009:SSA_0966|3end_Uridine_kinase,_putative_975790..975940_POSITIVE 247 110 75 71 39 NC_009009:SSA_0778|3end_Glycogen_synthase,_putative_762076..762226_POSITIVE 245 50 16 85 47 NC_009009:SSA_0563|3end_Universal_stress_protein_family,_putative_554947..555097_NEGATIVE 243 55 15 115 43 NC_009009:SSA_1763|3end_ABC-type_molybdenum_transport_system,_ATPase_component,_putative_1750951..1751101_POSITIVE 243 106 61 68 14 NC_009009:SSA_1753|3end_Transcriptional_regulator,_GntR_family_(repressor_of_trehalose_operon),_putative_1742740..1742890_POSITIVE 242 53 11 56 6 NC_009009:SSA_0546|3end_Phospho-2-dehydro-3-deoxyheptonate_aldolase_(DAHP_synthatase),_possibly_tyr-sensitive,_putative_541963..542113_POSITIVE 241 81 50 147 110 NC_009009:SSA_1577|3end_Proline_dipeptidase,_putative_1581456..1581606_POSITIVE 241 60 14 129 81 NC_009009:SSA_1443|3end_1-(5-phosphoribosyl)-5-[(5-_phosphoribosylamino)methylideneamino]_imidazole-4-carboxamide_isomerase,_putative_1445944..1446094_NEGATIVE