Origin IGS: tttttacctttcctttgcgcgaagcgtccatctaactaccgcttaacctgcaacaaggcttgtccttgttgtcagcgttgaagcgggtgttagaacttagctttattaagccttattttaaaattaaaaattttgattacacaacataccataaataaaaatcttatttcaactcaattacgataaaattaaacagcattgtatgtaataaatagt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 actatttattacatacaatgctgtttaattttatcgtaattgagttgaaataagatttttatttatggtatgttgtgtaatcaaaatttttaattttaaaataaggcttaataaagctaagttctaacacccgcttcaacgctgacaacaaggacaagccttgttgcaggttaagcggtagttagatggacgcttcgcgcaaaggaaaggtaaaaa Mask Tandem Repeat Region ================================================ tttttacctttcctttgcgcgaagcgtccatctaactaccgcttaacctgcaacaaggcttgtccttgttgtcagcgttgaagcgggtgttagaacttagctttattaagccttattttaaaattaaaaattttgattacacaacataccataaataaaaatcttatttcaactcaattacgataaaattaaacagcattgtatgtaataaatagt Find is-nt database================================================ Query_seq: TDE1825:TDE1826|TDE1825:TDE1826:hypothetical protein:hypothetical protein:<-<-:1858435..1858650 216 tttttacctttcctttgcgcgaagcgtccatctaactaccgcttaacctgcaacaaggcttgtccttgttgtcagcgttgaagcgggtgttagaacttagctttattaagccttattttaaaattaaaaattttgattacacaacataccataaataaaaatcttatttcaactcaattacgataaaattaaacagcattgtatgtaataaatagt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TDE1825:TDE1826|TDE1825:TDE1826:hypothetical protein:hypothetical protein:<-<-:1858435..1858650 216 tttttacctttcctttgcgcgaagcgtccatctaactaccgcttaacctgcaacaaggcttgtccttgttgtcagcgttgaagcgggtgttagaacttagctttattaagccttattttaaaattaaaaattttgattacacaacataccataaataaaaatcttatttcaactcaattacgataaaattaaacagcattgtatgtaataaatagt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TDE1825:TDE1826|TDE1825:TDE1826:hypothetical protein:hypothetical protein:<-<-:1858435..1858650 216 tttttacctttcctttgcgcgaagcgtccatctaactaccgcttaacctgcaacaaggcttgtccttgttgtcagcgttgaagcgggtgttagaacttagctttattaagccttattttaaaattaaaaattttgattacacaacataccataaataaaaatcttatttcaactcaattacgataaaattaaacagcattgtatgtaataaatagt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tttttacctttcctttgcgcgaagcgtccatctaactaccgcttaacctgcaacaaggcttgtccttgttgtcagcgttgaagcgggtgttagaacttagctttattaagccttattttaaaattaaaaattttgattacacaacataccataaataaaaatcttatttcaactcaattacgataaaattaaacagcattgtatgtaataaatagt Predict ORF larger than 30AA ================================================ Protein_Len: 36 Strand: + Start: 48 End: 155 ............................................... M Q Q G L S L L S A L K R V L E L S F I K P Y F K I K N F D Y T T Y H K ............................................................. tttttacctttcctttgcgcgaagcgtccatctaactaccgcttaacctgcaacaaggcttgtccttgttgtcagcgttgaagcgggtgttagaacttagctttattaagccttattttaaaattaaaaattttgattacacaacataccataaataaaaatcttatttcaactcaattacgataaaattaaacagcattgtatgtaataaatagt 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================================================ tttttacctttcctttgcgcgaagcgtccatctaactaccgcttaacctgcaacaaggcttgtccttgttgtcagcgttgaagcgggtgttagaacttagctttattaagccttattttaaaattaaaaattttgattacacaacataccataaataaaaatcttatttcaactcaattacgataaaattaaacagcattgtatgtaataaatagt Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 67 HP_score: -7.7 Tail_Score: -3.06133 Start: 36 End: 89 Full_Region: aaagctaagttctaa cacccgcttcaacgctgacaacaagg acaag ccttgttgcaggttaagcggtag ttagatggacgcttc ...................................cacccgcttcaacgctgacaacaaggacaagccttgttgcaggttaagcggtag............................................................................................................................... TransTerm Strand: + Conf: 74 HP_score: -8.9 Tail_Score: -3.0644 Start: 38 End: 87 Full_Region: AGCGTCCATCTAACT ACCGCTTAACCTGCAACAAGG CTTGT CCTTGTTGTCAGCGTTGAAGCGGG TGTTAGAACTTAGCT .....................................ACCGCTTAACCTGCAACAAGGCTTGTCCTTGTTGTCAGCGTTGAAGCGGG................................................................................................................................. TransTerm Strand: - Conf: 89 HP_score: -12.4 Tail_Score: -2.75064 Start: 39 End: 86 Full_Region: gctaagttctaacac ccgcttcaacgctgacaacaagg acaag ccttgttgcaggttaagcgg tagttagatggacgc ......................................ccgcttcaacgctgacaacaaggacaagccttgttgcaggttaagcgg.................................................................................................................................. TransTerm Strand: + Conf: 59 HP_score: -5.7 Tail_Score: -3.33261 Start: 54 End: 68 Full_Region: CCGCTTAACCTGCAA CAAGG CTTGT CCTTG TTGTCAGCGTTGAAG .....................................................CAAGGCTTGTCCTTG.................................................................................................................................................... Find igs database================================================ Query_seq: TDE1825:TDE1826|TDE1825:TDE1826:hypothetical protein:hypothetical protein:<-<-:1858435..1858650 216 tttttacctttcctttgcgcgaagcgtccatctaactaccgcttaacctgcaacaaggcttgtccttgttgtcagcgttgaagcgggtgttagaacttagctttattaagccttattttaaaattaaaaattttgattacacaacataccataaataaaaatcttatttcaactcaattacgataaaattaaacagcattgtatgtaataaatagt Intra-Species Hit: Count: 1 Min: 1 Max: 216 Len: 216 Subject: NC_002967_TDE1825_TDE1826|hypothetical protein:hypothetical protein|NEGATIVE:NEGATIVE|[1858435,1858650]|216 HSP 1 e-value: 1.0E-119 bit: 428.0 Len: 216 Query Start:1 Query End:216 Subject Strand: POSITIVE Subject Start: 1 Subject End: 216 tttttacctttcctttgcgcgaagcgtccatctaactaccgcttaacctgcaacaaggcttgtccttgttgtcagcgttgaagcgggtgttagaacttagctttattaagccttattttaaaattaaaaattttgattacacaacataccataaataaaaatcttatttcaactcaattacgataaaattaaacagcattgtatgtaataaatagt tttttacctttcctttgcgcgaagcgtccatctaactaccgcttaacctgcaacaaggcttgtccttgttgtcagcgttgaagcgggtgttagaacttagctttattaagccttattttaaaattaaaaattttgattacacaacataccataaataaaaatcttatttcaactcaattacgataaaattaaacagcattgtatgtaataaatagt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUUUACCUUUCCUUUGCGCGAAGCGUCCAUCUAACUACCGCUUAACCUGCAACAAGGCUUGUCCUUGUUGUCAGCGUUGAAGCGGGUGUUAGAACUUAGCUUUAUUAAGCCUUAUUUUAAAAUUAAAAAUUUUGAUUACACAACAUACCAUAAAUAAAAAUCUUAUUUCAACUCAAUUACGAUAAAAUUAAACAGCAUUGUAUGUAAUAAAUAGU ................((..(((((.....((((((..((((((((((((((((((((.....)))))))).))).)))).)))))..)))))).....))))).....))......(((((((.....))))))).......((((((...((((((.....))))))....((......)).................)))))).......... (-44.70) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ ACUAUUUAUUACAUACAAUGCUGUUUAAUUUUAUCGUAAUUGAGUUGAAAUAAGAUUUUUAUUUAUGGUAUGUUGUGUAAUCAAAAUUUUUAAUUUUAAAAUAAGGCUUAAUAAAGCUAAGUUCUAACACCCGCUUCAACGCUGACAACAAGGACAAGCCUUGUUGCAGGUUAAGCGGUAGUUAGAUGGACGCUUCGCGCAAAGGAAAGGUAAAAA .......((((((((..(((((((..((((((((..((((...))))..)))))))).......)))))))..)))))))).....((((((.((((.......(((((....)))))....((((((..((((((.(((.(((.((((((((.....))))))))))))))))))))..))))))..(.(((...))))....))))..)))))) (-54.10) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 1022 60 11 151 102 NC_002967:TDE1825|5end_hypothetical_protein_1858344..1858574_NEGATIVE 874 90 41 191 141 NC_002967:TDE0262|5end_hypothetical_protein_296300..296530_NEGATIVE 734 90 41 171 122 NC_002967:TDE0276|5end_HD_domain_protein_308029..308259_NEGATIVE 714 90 41 187 139 NC_002967:TDE0672|5end_hypothetical_protein_711110..711340_POSITIVE 706 90 41 190 140 NC_002967:TDE0279|5end_hypothetical_protein_309782..310012_NEGATIVE 677 90 41 177 128 NC_002967:TDE1822|5end_hypothetical_protein_1855922..1856152_NEGATIVE 672 90 41 180 131 NC_002967:TDE1836|5end_hypothetical_protein_1869443..1869673_NEGATIVE 672 90 41 217 168 NC_002967:TDE1831|5end_hypothetical_protein_1865032..1865262_NEGATIVE 672 90 41 184 135 NC_002967:TDE1827|5end_hydrolase,_carbon-nitrogen_family_1860830..1861060_NEGATIVE 672 90 41 198 149 NC_002967:TDE1823|5end_hypothetical_protein_1856990..1857220_NEGATIVE 672 90 41 182 133 NC_002967:TDE1817|5end_hypothetical_protein_1852599..1852829_NEGATIVE 672 90 41 231 182 NC_002967:TDE1813|5end_hypothetical_protein_1848249..1848479_NEGATIVE 672 90 41 179 130 NC_002967:TDE1811|5end_hypothetical_protein_1847483..1847713_NEGATIVE 672 90 41 217 168 NC_002967:TDE1797|5end_hypothetical_protein_1836272..1836502_NEGATIVE 672 90 41 170 121 NC_002967:TDE1795|5end_funZ_protein,_putative_1834673..1834903_NEGATIVE 672 90 41 187 138 NC_002967:TDE1791|5end_hypothetical_protein_1828775..1829005_NEGATIVE 672 90 41 188 139 NC_002967:TDE0267|5end_HAM1_protein_299108..299338_NEGATIVE 663 90 41 201 153 NC_002967:TDE1796|5end_hypothetical_protein_1835515..1835745_NEGATIVE 623 90 41 177 128 NC_002967:TDE1839|5end_hypothetical_protein_1871221..1871451_NEGATIVE 623 90 41 202 153 NC_002967:TDE1832|5end_hypothetical_protein_1865921..1866151_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 874 90 41 91 41 NC_002967:TDE0263|3end_spermidine_N1-acetyltransferase,_putative_296400..296550_NEGATIVE 734 90 41 91 42 NC_002967:TDE0277|3end_hypothetical_protein_308109..308259_NEGATIVE 714 90 41 75 27 NC_002967:TDE0671|3end_PIN_domain_protein_711078..711228_POSITIVE 706 90 41 77 27 NC_002967:TDE0280|3end_PIN_domain_protein_309895..310045_NEGATIVE 672 90 41 91 42 NC_002967:TDE1843|3end_hypothetical_protein_1872199..1872349_NEGATIVE 672 90 41 81 32 NC_002967:TDE1837|3end_hypothetical_protein_1869542..1869692_NEGATIVE 672 90 41 77 28 NC_002967:TDE1832|3end_hypothetical_protein_1865172..1865322_NEGATIVE 672 90 41 80 31 NC_002967:TDE1828|3end_hypothetical_protein_1860934..1861084_NEGATIVE 672 90 41 108 59 NC_002967:TDE1815|3end_hypothetical_protein_1849458..1849608_NEGATIVE 672 90 41 51 2 NC_002967:TDE1814|3end_hypothetical_protein_1848429..1848579_NEGATIVE 672 90 41 82 33 NC_002967:TDE1812|3end_hypothetical_protein_1847580..1847730_NEGATIVE 672 90 41 77 28 NC_002967:TDE1796|3end_hypothetical_protein_1834766..1834916_NEGATIVE 672 90 41 51 2 NC_002967:TDE1792|3end_hypothetical_protein_1828911..1829061_NEGATIVE 672 90 41 73 24 NC_002967:TDE1787|3end_hypothetical_protein_1826378..1826528_NEGATIVE 672 90 41 91 42 NC_002967:TDE1780|3end_hypothetical_protein_1822183..1822333_NEGATIVE 672 90 41 77 28 NC_002967:TDE0268|3end_hypothetical_protein_299219..299369_NEGATIVE 663 90 41 61 13 NC_002967:TDE1831|3end_hypothetical_protein_1864415..1864565_NEGATIVE 663 90 41 61 13 NC_002967:TDE1797|3end_hypothetical_protein_1835655..1835805_NEGATIVE 653 90 41 86 37 NC_002967:TDE1806|3end_hypothetical_protein_1843190..1843340_NEGATIVE 644 90 41 91 42 NC_002967:TDE1793|3end_hydrolase,_carbon-nitrogen_family_1829957..1830107_NEGATIVE