Origin IGS: aaataaaacaaaacaaggatattttgaagaattttctcatattatagaacataattttgacaacgagctgttggcaaaattgttttgatgacaagtcgtataaaaagcacgcattatatctcttaggcttggaaacttgtgttaatcttttgcaaatatgggatta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taatcccatatttgcaaaagattaacacaagtttccaagcctaagagatataatgcgtgctttttatacgacttgtcatcaaaacaattttgccaacagctcgttgtcaaaattatgttctataatatgagaaaattcttcaaaatatccttgttttgttttattt Mask Tandem Repeat Region ================================================ aaataaaacaaaacaaggatattttgaagaattttctcatattatagaacataattttgacaacgagctgttggcaaaattgttttgatgacaagtcgtataaaaagcacgcattatatctcttaggcttggaaacttgtgttaatcttttgcaaatatgggatta Find is-nt database================================================ Query_seq: TF0315:TF0317|TF0315:TF0317:hypothetical protein:conserved hypothetical protein:->->:341560..341725 166 aaataaaacaaaacaaggatattttgaagaattttctcatattatagaacataattttgacaacgagctgttggcaaaattgttttgatgacaagtcgtataaaaagcacgcattatatctcttaggcttggaaacttgtgttaatcttttgcaaatatgggatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF0315:TF0317|TF0315:TF0317:hypothetical protein:conserved hypothetical protein:->->:341560..341725 166 aaataaaacaaaacaaggatattttgaagaattttctcatattatagaacataattttgacaacgagctgttggcaaaattgttttgatgacaagtcgtataaaaagcacgcattatatctcttaggcttggaaacttgtgttaatcttttgcaaatatgggatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF0315:TF0317|TF0315:TF0317:hypothetical protein:conserved hypothetical protein:->->:341560..341725 166 aaataaaacaaaacaaggatattttgaagaattttctcatattatagaacataattttgacaacgagctgttggcaaaattgttttgatgacaagtcgtataaaaagcacgcattatatctcttaggcttggaaacttgtgttaatcttttgcaaatatgggatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aaataaaacaaaacaaggatattttgaagaattttctcatattatagaacataattttgacaacgagctgttggcaaaattgttttgatgacaagtcgtataaaaagcacgcattatatctcttaggcttggaaacttgtgttaatcttttgcaaatatgggatta Predict ORF larger than 30AA ================================================ Protein_Len: 38 Strand: + Start: 51 End: 164 .................................................. M I L T T S C W Q N C F D D K S Y K K H A L Y L L G L E T C V N L L Q I W D .. Protein_Len: 52 Strand: - Start: 2 End: 157 . I F C F L S I K F F K R M N Y F M I K V V L Q Q C F Q K S S L D Y L F C A N Y R K P K S V Q T L R K C M ......... aaataaaacaaaacaaggatattttgaagaattttctcatattatagaacataattttgacaacgagctgttggcaaaattgttttgatgacaagtcgtataaaaagcacgcattatatctcttaggcttggaaacttgtgttaatcttttgcaaatatgggatta 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================================================ aaataaaacaaaacaaggatattttgaagaattttctcatattatagaacataattttgacaacgagctgttggcaaaattgttttgatgacaagtcgtataaaaagcacgcattatatctcttaggcttggaaacttgtgttaatcttttgcaaatatgggatta Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 74 HP_score: -7.0 Tail_Score: -4.2558 Start: 52 End: 82 Full_Region: TCATATTATAGAACA TAATTTTGACAACG AGC TGTTGGCAAAATTG TTTTGATGACAAGTC ...................................................TAATTTTGACAACGAGCTGTTGGCAAAATTG.................................................................................... TransTerm Strand: - Conf: 64 HP_score: -5.8 Tail_Score: -3.80945 Start: 55 End: 79 Full_Region: ttgtcatcaaaacaa ttttgccaac agctc gttgtcaaaa ttatgttctataata ......................................................ttttgccaacagctcgttgtcaaaa....................................................................................... Find igs database================================================ Query_seq: TF0315:TF0317|TF0315:TF0317:hypothetical protein:conserved hypothetical protein:->->:341560..341725 166 aaataaaacaaaacaaggatattttgaagaattttctcatattatagaacataattttgacaacgagctgttggcaaaattgttttgatgacaagtcgtataaaaagcacgcattatatctcttaggcttggaaacttgtgttaatcttttgcaaatatgggatta Intra-Species Hit: Count: 1 Min: 1 Max: 166 Len: 166 Subject: tfor_TF0315_TF0317|hypothetical protein:conserved hypothetical protein|POSITIVE:POSITIVE|[341560,341725]|166 HSP 1 e-value: 2.0E-89 bit: 329.0 Len: 166 Query Start:1 Query End:166 Subject Strand: POSITIVE Subject Start: 1 Subject End: 166 aaataaaacaaaacaaggatattttgaagaattttctcatattatagaacataattttgacaacgagctgttggcaaaattgttttgatgacaagtcgtataaaaagcacgcattatatctcttaggcttggaaacttgtgttaatcttttgcaaatatgggatta aaataaaacaaaacaaggatattttgaagaattttctcatattatagaacataattttgacaacgagctgttggcaaaattgttttgatgacaagtcgtataaaaagcacgcattatatctcttaggcttggaaacttgtgttaatcttttgcaaatatgggatta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAAUAAAACAAAACAAGGAUAUUUUGAAGAAUUUUCUCAUAUUAUAGAACAUAAUUUUGACAACGAGCUGUUGGCAAAAUUGUUUUGAUGACAAGUCGUAUAAAAAGCACGCAUUAUAUCUCUUAGGCUUGGAAACUUGUGUUAAUCUUUUGCAAAUAUGGGAUUA ........(((((........)))))........(((((((((.......(((((((((.((((.....)))).))))))))).(((((.((((((..(.....((((.(...............))))).)..))))))))))).........)))))))))... (-27.36) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUCCCAUAUUUGCAAAAGAUUAACACAAGUUUCCAAGCCUAAGAGAUAUAAUGCGUGCUUUUUAUACGACUUGUCAUCAAAACAAUUUUGCCAACAGCUCGUUGUCAAAAUUAUGUUCUAUAAUAUGAGAAAAUUCUUCAAAAUAUCCUUGUUUUGUUUUAUUU ...((.((((((.(((...(((....(((((((.........(((((.(((.....)))))))).....))))))).))).....(((((((.((((.....)))).))))))).))).....)))))).))........(((((((....)))))))........ (-23.54) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 293 98 55 63 21 tfor:TF1798|5end_aldose_1-epimerase_1938815..1939045_POSITIVE 286 110 64 74 28 tfor:TF0372|5end_transcriptional_regulator_390538..390768_POSITIVE 280 116 79 101 60 tfor:TF1474|5end_6-phosphogluconolactonase_1567342..1567572_POSITIVE 276 99 52 51 2 tfor:TF0351|5end_hypothetical_protein_370922..371152_POSITIVE 273 102 61 61 22 tfor:TF1936|5end_conserved_hypothetical_protein_2083984..2084214_POSITIVE 264 100 63 56 13 tfor:TF2581|5end_50S_ribosomal_protein_L17_2748814..2749044_POSITIVE 264 100 54 53 3 tfor:TF0014|5end_beta-glucosidase_(beta-D-glucoside_glucohydrolase),_periplasmic_7233..7463_POSITIVE 260 99 53 51 4 tfor:TF0364|5end_ysyl_endopeptidase_380395..380625_POSITIVE 251 92 51 204 166 tfor:TF0360|5end_hypothetical_protein_378931..379161_POSITIVE 243 128 87 148 104 tfor:TF0653|5end_hypothetical_protein_696544..696774_POSITIVE 240 99 64 84 54 tfor:TF2344|5end_ATP/GTP_binding_protein_2507422..2507652_POSITIVE 240 98 64 41 9 tfor:TF1308|5end_50S_ribosomal_protein_L28_1387224..1387454_POSITIVE 239 87 50 184 144 tfor:TF0304|5end_peptidyl-prolyl_cis-trans_isomerase_329567..329797_POSITIVE 238 98 55 198 161 tfor:TF2255|5end_transfer_region-related_protein,_TraH_2427504..2427734_POSITIVE 238 99 64 208 170 tfor:TF1744|5end_phenylacetate-CoA_ligase_1877822..1878052_POSITIVE 238 98 56 132 87 tfor:TF0324|5end_conserved_hypothetical_protein_351228..351458_POSITIVE 234 102 61 81 28 tfor:TF2001|5end_conserved_hypothetical_protein_2155384..2155614_POSITIVE 231 136 98 132 89 tfor:TF1745|5end_hypothetical_protein_1879154..1879384_POSITIVE 230 110 63 164 117 tfor:TF0457|5end_beta-glucanase_precursor_474099..474329_POSITIVE 229 154 114 221 183 tfor:TF2570|5end_50S_ribosomal_protein_L18_2742198..2742428_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 276 99 52 150 101 tfor:TF0350|3end_hypothetical_protein_371101..371251_POSITIVE 273 102 61 76 37 tfor:TF1934|3end_hypothetical_protein_2084079..2084229_POSITIVE 264 100 63 46 3 tfor:TF2580|3end_RNA_polymerase,_alpha_subunit_2748884..2749034_POSITIVE 243 128 87 46 2 tfor:TF0652|3end_conserved_hypothetical_protein_696522..696672_POSITIVE 240 99 64 84 54 tfor:TF2343|3end_ribosome_recycling_factor_2507502..2507652_POSITIVE 239 87 50 148 108 tfor:TF0302|3end_FKBP-type_peptidyl-prolyl_cis-trans_isomerase_329611..329761_POSITIVE 238 98 55 145 108 tfor:TF2253|3end_conjugative_transposon_protein,_TraG_2427531..2427681_POSITIVE 234 102 61 100 47 tfor:TF2000|3end_conserved_hypothetical_protein_2155483..2155633_POSITIVE 231 136 98 116 73 tfor:TF1744|3end_phenylacetate-CoA_ligase_1879218..1879368_POSITIVE 227 140 92 118 69 tfor:TF1200|3end_conserved_hypothetical_protein_1283798..1283948_POSITIVE 225 108 62 129 83 tfor:TF3018|3end_polyphosphate_kinase_3242241..3242391_POSITIVE 224 128 81 98 44 tfor:TF0684|3end_conserved_hypothetical_protein_730564..730714_POSITIVE 224 91 51 49 8 tfor:TF0315|3end_hypothetical_protein_341499..341649_POSITIVE 223 116 72 130 91 tfor:TF1704|3end_conserved_hypothetical_protein_1827337..1827487_POSITIVE 218 108 61 147 99 tfor:TF1525|3end_conserved_hypothetical_protein_1632532..1632682_POSITIVE 217 153 113 56 15 tfor:TF2149|3end_deoxyribose-phosphate_aldolase_2323110..2323260_POSITIVE 213 98 54 151 104 tfor:TF2850|3end_endoribonuclease_L-PSP_3038871..3039021_POSITIVE 211 154 119 95 51 tfor:TF2646|3end_conserved_hypothetical_protein_2816697..2816847_POSITIVE 210 110 64 62 22 tfor:TF2205|3end_conserved_hypothetical_protein;_possible_transcriptional_regulator_2380010..2380160_POSITIVE 208 130 81 125 73 tfor:TF2445|3end_protoporphyrinogen_oxidase_2622388..2622538_POSITIVE