Origin IGS: tttgataaggtgcagggacagaaagactgaattcttgtccttgcgcctttatctttatttattgagttttaaaattaacgtaattttaaagaagagattttcaaagagaaaaata .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tatttttctctttgaaaatctcttctttaaaattacgttaattttaaaactcaataaataaagataaaggcgcaaggacaagaattcagtctttctgtccctgcaccttatcaaa Mask Tandem Repeat Region ================================================ tttgataaggtgcagggacagaaagactgaattcttgtccttgcgcctttatctttatttattgagttttaaaattaacgtaattttaaagaagagattttcaaagagaaaaata Find is-nt database================================================ Query_seq: TDE1040:TDE1041|TDE1040:TDE1041:ribosomal protein S15:polyribonucleotide nucleotidyltransferase:->->:1068349..1068463 115 tttgataaggtgcagggacagaaagactgaattcttgtccttgcgcctttatctttatttattgagttttaaaattaacgtaattttaaagaagagattttcaaagagaaaaata Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TDE1040:TDE1041|TDE1040:TDE1041:ribosomal protein S15:polyribonucleotide nucleotidyltransferase:->->:1068349..1068463 115 tttgataaggtgcagggacagaaagactgaattcttgtccttgcgcctttatctttatttattgagttttaaaattaacgtaattttaaagaagagattttcaaagagaaaaata Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TDE1040:TDE1041|TDE1040:TDE1041:ribosomal protein S15:polyribonucleotide nucleotidyltransferase:->->:1068349..1068463 115 tttgataaggtgcagggacagaaagactgaattcttgtccttgcgcctttatctttatttattgagttttaaaattaacgtaattttaaagaagagattttcaaagagaaaaata Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tttgataaggtgcagggacagaaagactgaattcttgtccttgcgcctttatctttatttattgagttttaaaattaacgtaattttaaagaagagattttcaaagagaaaaata Predict ORF larger than 30AA ================================================ Protein_Len: 38 Strand: + Start: 2 End: 115 . M I R C R D R K T E F L S L R L Y L Y L L S F K I N V I L K K R F S K R K I tttgataaggtgcagggacagaaagactgaattcttgtccttgcgcctttatctttatttattgagttttaaaattaacgtaattttaaagaagagattttcaaagagaaaaata 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================================================ tttgataaggtgcagggacagaaagactgaattcttgtccttgcgcctttatctttatttattgagttttaaaattaacgtaattttaaagaagagattttcaaagagaaaaata Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TDE1040:TDE1041|TDE1040:TDE1041:ribosomal protein S15:polyribonucleotide nucleotidyltransferase:->->:1068349..1068463 115 tttgataaggtgcagggacagaaagactgaattcttgtccttgcgcctttatctttatttattgagttttaaaattaacgtaattttaaagaagagattttcaaagagaaaaata Intra-Species Hit: Count: 1 Min: 1 Max: 115 Len: 115 Subject: NC_002967_TDE1040_TDE1041|ribosomal protein S15:polyribonucleotide nucleotidyltransferase|POSITIVE:POSITIVE|[1068349, 1068463]|115 HSP 1 e-value: 3.0E-59 bit: 228.0 Len: 115 Query Start:1 Query End:115 Subject Strand: POSITIVE Subject Start: 1 Subject End: 115 tttgataaggtgcagggacagaaagactgaattcttgtccttgcgcctttatctttatttattgagttttaaaattaacgtaattttaaagaagagattttcaaagagaaaaata tttgataaggtgcagggacagaaagactgaattcttgtccttgcgcctttatctttatttattgagttttaaaattaacgtaattttaaagaagagattttcaaagagaaaaata Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUGAUAAGGUGCAGGGACAGAAAGACUGAAUUCUUGUCCUUGCGCCUUUAUCUUUAUUUAUUGAGUUUUAAAAUUAACGUAAUUUUAAAGAAGAGAUUUUCAAAGAGAAAAAUA (((((.(((((((((((((((((........))).))))))))))))))..((((((...((((.(((........))).))))..))))))........))))).......... (-32.70) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAUUUUUCUCUUUGAAAAUCUCUUCUUUAAAAUUACGUUAAUUUUAAAACUCAAUAAAUAAAGAUAAAGGCGCAAGGACAAGAAUUCAGUCUUUCUGUCCCUGCACCUUAUCAAA ...(((((.....))))).......((((((((((...))))))))))..............(((((.((.(((.(((((.(((........)))))))).))).)))))))... (-26.20) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 312 49 9 50 5 NC_002967:TDE0982|5end_dihydroorotate_dehydrogenase/oxidoreductase,_FAD-binding_1006477..1006707_POSITIVE 311 48 5 54 9 NC_002967:TDE1914|5end_Holliday_junction_DNA_helicase_RuvB_1931920..1932150_NEGATIVE 263 50 7 164 119 NC_002967:TDE1341|5end_hypothetical_protein_1377063..1377293_POSITIVE 261 60 11 106 59 NC_002967:TDE2253|5end_hypothetical_protein_2291003..2291233_POSITIVE 255 58 12 146 99 NC_002967:TDE1104|5end_tRNA_pseudouridine_synthase_B_1137786..1138016_NEGATIVE 254 48 11 65 35 NC_002967:TDE0153|5end_coenzyme_A_disulfide_reductase,_putative_176185..176415_NEGATIVE 249 40 12 30 1 NC_002967:TDE2233|5end_iron_compound_ABC_transporter,_permease_protein,_putative_2272310..2272540_NEGATIVE 246 58 13 215 172 NC_002967:TDE1314|5end_penicillin-binding_protein_1351174..1351404_POSITIVE 243 50 1 106 60 NC_002967:TDE0702|5end_ABC_transporter,_ATP-binding_protein_737969..738199_NEGATIVE 240 54 11 71 12 NC_002967:TDE0623|5end_precorrin-3B_C17-methyltransferase_655783..656013_POSITIVE 238 86 41 134 80 NC_002967:TDE2095|5end_hypothetical_protein_2121749..2121979_POSITIVE 238 56 15 189 144 NC_002967:TDE0529|5end_hypothetical_protein_573801..574031_POSITIVE 237 60 24 148 114 NC_002967:TDE0787|5end_preprotein_translocase_SecY_815068..815298_POSITIVE 236 57 11 72 21 NC_002967:TDE1492|5end_chemotaxis_protein_CheW_1537231..1537461_POSITIVE 234 49 3 79 37 NC_002967:TDE1875|5end_hypothetical_protein_1896906..1897136_NEGATIVE 233 70 32 199 158 NC_002967:TDE1297|5end_LysM_domain/M23/M37_peptidase_domain_protein_1334782..1335012_NEGATIVE 232 50 8 143 107 NC_002967:TDE2259|5end_hypothetical_protein_2297237..2297467_NEGATIVE 232 49 9 229 183 NC_002967:TDE0629|5end_chaperone_protein_DnaJ_662587..662817_POSITIVE 231 46 3 61 19 NC_002967:TDE2782|5end_ABC_transporter,_ATP-binding/permease_protein_2834276..2834506_NEGATIVE 231 55 12 195 147 NC_002967:TDE2342|5end_1-deoxy-D-xylulose_5-phosphate_reductoisomerase_2380383..2380613_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 471 49 4 84 38 NC_002967:TDE1040|3end_ribosomal_protein_S15_1068288..1068438_POSITIVE 311 48 5 46 1 NC_002967:TDE1915|3end_alcohol_dehydrogenase,_iron-containing_1931928..1932078_NEGATIVE 309 49 7 58 9 NC_002967:TDE0763|3end_hypothetical_protein_804234..804384_NEGATIVE 277 57 12 83 33 NC_002967:TDE1131|3end_hypothetical_protein_1163531..1163681_POSITIVE 269 46 7 48 1 NC_002967:TDE1084|3end_folylpolyglutamate_synthetase,_putative_1114934..1115084_NEGATIVE 263 50 7 53 8 NC_002967:TDE1340|3end_ribosomal_5S_rRNA_E-loop_binding_protein_Ctc/L25/TL5_1377032..1377182_POSITIVE 261 60 11 96 49 NC_002967:TDE2252|3end_hypothetical_protein_2291073..2291223_POSITIVE 259 59 11 151 105 NC_002967:TDE0059|3end_hypothetical_protein_67481..67631_POSITIVE 259 59 11 68 22 NC_002967:TDE0058|3end_hypothetical_protein_67398..67548_POSITIVE 255 58 12 131 84 NC_002967:TDE1105|3end_ribosome-binding_factor_A_1137801..1137951_NEGATIVE 254 48 11 42 12 NC_002967:TDE0154|3end_adenylate/guanylate_cyclase_catalytic_domain_protein_176208..176358_NEGATIVE 249 40 12 30 1 NC_002967:TDE2234|3end_iron_compound_ABC_transporter,_periplasmic_iron_compound-binding_protein,_putative_2272310..2272460_NEGATIVE 246 69 21 145 105 NC_002967:TDE0797|3end_acylphosphatase_821223..821373_POSITIVE 243 56 14 98 53 NC_002967:TDE2293|3end_hypothetical_protein_2329325..2329475_NEGATIVE 243 50 1 109 63 NC_002967:TDE0703|3end_transcriptional_regulator,_AbrB_family_737966..738116_NEGATIVE 243 56 11 151 101 NC_002967:TDE0354|3end_general_stress_protein_14_399001..399151_POSITIVE 237 60 24 134 100 NC_002967:TDE0786|3end_ribosomal_protein_L15_815134..815284_POSITIVE 236 57 11 55 4 NC_002967:TDE1491|3end_chemotaxis_protein_CheA_1537294..1537444_POSITIVE 234 49 3 46 4 NC_002967:TDE1876|3end_glycosyl_transferase,_WecB/TagA/CpsF_family_1896939..1897089_NEGATIVE 230 50 8 129 93 NC_002967:TDE1323|3end_hypothetical_protein_1360968..1361118_POSITIVE