Origin IGS: caggccttaatggcttgctttttatctggcttctacttacttttttaaaaatttaatataagttttgcctaaaatagggtataataataaacaagaaagaatgaggtgaaatt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aatttcacctcattctttcttgtttattattataccctattttaggcaaaacttatattaaatttttaaaaaagtaagtagaagccagataaaaagcaagccattaaggcctg Mask Tandem Repeat Region ================================================ caggccttaatggcttgctttttatctggcttctacttacttttttaaaaatttaatataagttttgcctaaaatagggtataataataaacaagaaagaatgaggtgaaatt Find is-nt database================================================ Query_seq: SSA_0961:SSA_0962|SSA_0961:SSA_0962:Possible ketopantoate reductase PanE/ApbA, putative:Lactoylglutathione lyase, putative:->->:970992..971104 113 caggccttaatggcttgctttttatctggcttctacttacttttttaaaaatttaatataagttttgcctaaaatagggtataataataaacaagaaagaatgaggtgaaatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SSA_0961:SSA_0962|SSA_0961:SSA_0962:Possible ketopantoate reductase PanE/ApbA, putative:Lactoylglutathione lyase, putative:->->:970992..971104 113 caggccttaatggcttgctttttatctggcttctacttacttttttaaaaatttaatataagttttgcctaaaatagggtataataataaacaagaaagaatgaggtgaaatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SSA_0961:SSA_0962|SSA_0961:SSA_0962:Possible ketopantoate reductase PanE/ApbA, putative:Lactoylglutathione lyase, putative:->->:970992..971104 113 caggccttaatggcttgctttttatctggcttctacttacttttttaaaaatttaatataagttttgcctaaaatagggtataataataaacaagaaagaatgaggtgaaatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 caggccttaatggcttgctttttatctggcttctacttacttttttaaaaatttaatataagttttgcctaaaatagggtataataataaacaagaaagaatgaggtgaaatt Predict ORF larger than 30AA ================================================ caggccttaatggcttgctttttatctggcttctacttacttttttaaaaatttaatataagttttgcctaaaatagggtataataataaacaagaaagaatgaggtgaaatt 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================================================ caggccttaatggcttgctttttatctggcttctacttacttttttaaaaatttaatataagttttgcctaaaatagggtataataataaacaagaaagaatgaggtgaaatt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SSA_0961:SSA_0962|SSA_0961:SSA_0962:Possible ketopantoate reductase PanE/ApbA, putative:Lactoylglutathione lyase, putative:->->:970992..971104 113 caggccttaatggcttgctttttatctggcttctacttacttttttaaaaatttaatataagttttgcctaaaatagggtataataataaacaagaaagaatgaggtgaaatt Intra-Species Hit: Count: 1 Min: 1 Max: 113 Len: 113 Subject: NC_009009_SSA_0961_SSA_0962|Possible ketopantoate reductase PanE/ApbA, putative:Lactoylglutathione lyase, putative|POSITIVE:POSITIVE|[970992,971104]|113 HSP 1 e-value: 5.0E-58 bit: 224.0 Len: 113 Query Start:1 Query End:113 Subject Strand: POSITIVE Subject Start: 1 Subject End: 113 caggccttaatggcttgctttttatctggcttctacttacttttttaaaaatttaatataagttttgcctaaaatagggtataataataaacaagaaagaatgaggtgaaatt caggccttaatggcttgctttttatctggcttctacttacttttttaaaaatttaatataagttttgcctaaaatagggtataataataaacaagaaagaatgaggtgaaatt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CAGGCCUUAAUGGCUUGCUUUUUAUCUGGCUUCUACUUACUUUUUUAAAAAUUUAAUAUAAGUUUUGCCUAAAAUAGGGUAUAAUAAUAAACAAGAAAGAAUGAGGUGAAAUU ((((((.....))))))..((((((((.(.((((....((((..((((....))))...))))..(((((......)))))................))))).)))))))).. (-21.80) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAUUUCACCUCAUUCUUUCUUGUUUAUUAUUAUACCCUAUUUUAGGCAAAACUUAUAUUAAAUUUUUAAAAAAGUAAGUAGAAGCCAGAUAAAAAGCAAGCCAUUAAGGCCUG .......(((........(((((((.(((((....((((...))))....((((((.................))))))........))))).)))))))......))).... (-12.67) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 299 42 1 169 122 NC_009009:SSA_1451|5end_Exonuclease_RexA,_putative_1456418..1456648_NEGATIVE 285 47 3 114 61 NC_009009:SSA_1501|5end_Cytidylate_kinase,_putative_1505772..1506002_NEGATIVE 278 36 1 55 8 NC_009009:SSA_1459|5end_RNA_methyltransferase,_putative_1467481..1467711_NEGATIVE 276 47 2 61 13 NC_009009:SSA_2226|5end_Organic_radical_activating_chaperone,_putative_2227756..2227986_NEGATIVE 270 36 1 73 33 NC_009009:SSA_0346|5end_hypothetical_protein_339448..339678_POSITIVE 264 49 2 169 116 NC_009009:SSA_2205|5end_Transcription_antitermination_factor_NusG,_putative_2206100..2206330_NEGATIVE 262 40 1 179 141 NC_009009:SSA_2222|5end_Tyrosine-protein_kinase_Wze,_putative_2223997..2224227_NEGATIVE 262 36 1 223 182 NC_009009:SSA_1540|5end_hypothetical_protein_1545268..1545498_NEGATIVE 259 33 1 137 104 NC_009009:SSA_1910|5end_hypothetical_protein_1902672..1902902_NEGATIVE 257 39 1 204 161 NC_009009:SSA_0931|5end_hypothetical_protein_940281..940511_POSITIVE 257 43 4 173 135 NC_009009:SSA_0625|5end_Phosphopantetheine_adenylyltransferase_615608..615838_POSITIVE 256 39 3 164 120 NC_009009:SSA_0785|5end_Proton-translocating_ATPase,_F1_sector,_delta_subunit,_putative_768044..768274_POSITIVE 253 45 5 148 105 NC_009009:SSA_0311|5end_hypothetical_protein_305877..306107_POSITIVE 249 41 11 78 54 NC_009009:SSA_2024|5end_hypothetical_protein_2029272..2029502_NEGATIVE 248 47 4 168 127 NC_009009:SSA_1601|5end_VacB-like_protein,_putative_1607059..1607289_NEGATIVE 244 43 2 213 171 NC_009009:SSA_2351|5end_ABC-type_nitrate/sulfonate/bicarbonate_transport_system,_ATPase_component,_putative_2353507..2353737_NEGATIVE 243 48 1 108 71 NC_009009:SSA_0882|5end_Phosphoserine_phosphatase,_putative_876903..877133_POSITIVE 242 46 9 104 62 NC_009009:SSA_1080|5end_Transcriptional_repressor_of_the_fructose_operon,_DeoR_family,_putative_1097538..1097768_POSITIVE 242 50 2 109 70 NC_009009:SSA_1070|5end_Ribosomal_large_subunit_pseudouridine_synthase_D,_putative_1088742..1088972_POSITIVE 238 42 1 179 127 NC_009009:SSA_1940|5end_3-oxoacyl-[acyl-carrier-protein]_synthase_III,_putative_1927129..1927359_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 320 46 2 48 8 NC_009009:SSA_0971|3end_Conserved_uncharacterized_protein_980069..980219_POSITIVE 285 47 3 104 51 NC_009009:SSA_1502|3end_Conserved_uncharacterized_protein_(contains_LysM,_Lysin_motif)_1505782..1505932_NEGATIVE 276 47 2 101 53 NC_009009:SSA_2227|3end_Acetyl_transferase,_putative_2227716..2227866_NEGATIVE 259 33 1 144 111 NC_009009:SSA_1911|3end_Conserved_uncharacterized_protein_1902665..1902815_NEGATIVE 257 39 1 106 63 NC_009009:SSA_0929|3end_ABC-type_multidrug_transporter,_ATPase_and_permease_components,_putative_940263..940413_POSITIVE 255 50 2 109 68 NC_009009:SSA_1190|3end_Conserved_uncharacterized_protein_1217799..1217949_NEGATIVE 253 46 11 52 8 NC_009009:SSA_1711|3end_Endonuclease_III,_putative_1699007..1699157_NEGATIVE 243 48 1 74 37 NC_009009:SSA_0881|3end_Lipoprotein,_putative_876949..877099_POSITIVE 242 50 2 125 86 NC_009009:SSA_1069|3end_Lipoprotein_signal_peptidase,_putative_1088838..1088988_POSITIVE 237 50 5 39 1 NC_009009:SSA_2352|3end_ABC-type_nitrate/sulfonate/bicarbonate_transporter,_periplasmic_component,_putative_2353507..2353657_NEGATIVE 236 48 1 140 86 NC_009009:SSA_1783|3end_Xanthosine_triphosphate_pyrophosphatase_(NTPase/HAM1_family),_putative_1768102..1768252_NEGATIVE 236 47 1 121 77 NC_009009:SSA_0457|3end_Fructokinase,_putative_461642..461792_POSITIVE 234 44 12 57 22 NC_009009:SSA_1152|3end_Protein_chain_release_factor_A,_putative_1181918..1182068_POSITIVE 233 45 1 92 50 NC_009009:SSA_0972|3end_hypothetical_protein_980364..980514_POSITIVE 233 39 1 112 70 NC_009009:SSA_0966|3end_Uridine_kinase,_putative_975790..975940_POSITIVE 233 41 2 107 52 NC_009009:SSA_0784|3end_Proton-translocating_ATPase,_F0_sector,_subunit_b,_putative_768124..768274_POSITIVE 233 47 4 68 20 NC_009009:SSA_0525|3end_Microcompartment_protein,_putative_523842..523992_POSITIVE 230 34 1 57 24 NC_009009:SSA_1417|3end_SAM-dependent_methyltransferase,_putative_1427304..1427454_NEGATIVE 229 44 2 53 15 NC_009009:SSA_0624|3end_hypothetical_protein_615698..615848_POSITIVE 229 39 2 151 116 NC_009009:SSA_0093|3end_V-type_sodium_ATPase,_subunit_D,_putative_94989..95139_POSITIVE