Origin IGS: ttcgaccttcctttcgcaatgctctcttcattgcaattattttttttcggtcggaaggctgttttgattggttccgttacccgcctgccgttaggcaggtcaatctaacattcgcttaacctgcatttgcggcttgtccgcaatgtcagcgttgaagcgggtgttagatgcttttatttatactttattaacttttaagattgaatttatcatatcatcatttttatactgctcgctcaattc .........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 gaattgagcgagcagtataaaaatgatgatatgataaattcaatcttaaaagttaataaagtataaataaaagcatctaacacccgcttcaacgctgacattgcggacaagccgcaaatgcaggttaagcgaatgttagattgacctgcctaacggcaggcgggtaacggaaccaatcaaaacagccttccgaccgaaaaaaaataattgcaatgaagagagcattgcgaaaggaaggtcgaa Mask Tandem Repeat Region ================================================ ttcgaccttcctttcgcaatgctctcttcattgcaattattttttttcggtcggaaggctgttttgattggttccgttacccgcctgccgttaggcaggtcaatctaacattcgcttaacctgcatttgcggcttgtccgcaatgtcagcgttgaagcgggtgttagatgcttttatttatactttattaacttttaagattgaatttatcatatcatcatttttatactgctcgctcaattc Find is-nt database================================================ Query_seq: TDE1818:TDE1819|TDE1818:TDE1819:hypothetical protein:hypothetical protein:<-<-:1853882..1854124 243 ttcgaccttcctttcgcaatgctctcttcattgcaattattttttttcggtcggaaggctgttttgattggttccgttacccgcctgccgttaggcaggtcaatctaacattcgcttaacctgcatttgcggcttgtccgcaatgtcagcgttgaagcgggtgttagatgcttttatttatactttattaacttttaagattgaatttatcatatcatcatttttatactgctcgctcaattc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TDE1818:TDE1819|TDE1818:TDE1819:hypothetical protein:hypothetical protein:<-<-:1853882..1854124 243 ttcgaccttcctttcgcaatgctctcttcattgcaattattttttttcggtcggaaggctgttttgattggttccgttacccgcctgccgttaggcaggtcaatctaacattcgcttaacctgcatttgcggcttgtccgcaatgtcagcgttgaagcgggtgttagatgcttttatttatactttattaacttttaagattgaatttatcatatcatcatttttatactgctcgctcaattc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TDE1818:TDE1819|TDE1818:TDE1819:hypothetical protein:hypothetical protein:<-<-:1853882..1854124 243 ttcgaccttcctttcgcaatgctctcttcattgcaattattttttttcggtcggaaggctgttttgattggttccgttacccgcctgccgttaggcaggtcaatctaacattcgcttaacctgcatttgcggcttgtccgcaatgtcagcgttgaagcgggtgttagatgcttttatttatactttattaacttttaagattgaatttatcatatcatcatttttatactgctcgctcaattc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ttcgaccttcctttcgcaatgctctcttcattgcaattattttttttcggtcggaaggctgttttgattggttccgttacccgcctgccgttaggcaggtcaatctaacattcgcttaacctgcatttgcggcttgtccgcaatgtcagcgttgaagcgggtgttagatgcttttatttatactttattaacttttaagattgaatttatcatatcatcatttttatactgctcgctcaattc Predict ORF larger than 30AA ================================================ Protein_Len: 44 Strand: + Start: 110 End: 241 ............................................................................................................. M R L T C I C G L S A M S A L K R V L D A F I Y T L L T F K I E F I I S S F L Y C S L N .. Protein_Len: 34 Strand: - Start: 3 End: 104 .. S R G K A I S E E N C N N K K P R F A T K I P E T V R R G N P L D M ........................................................................................................................................... ttcgaccttcctttcgcaatgctctcttcattgcaattattttttttcggtcggaaggctgttttgattggttccgttacccgcctgccgttaggcaggtcaatctaacattcgcttaacctgcatttgcggcttgtccgcaatgtcagcgttgaagcgggtgttagatgcttttatttatactttattaacttttaagattgaatttatcatatcatcatttttatactgctcgctcaattc Predict Promoter with matrix: RpoD-15 score > 80================================================ Predict Promoter with matrix: RpoD-16 score > 80================================================ Predict Promoter with matrix: RpoD-17 score > 80================================================ PromScan Matrix: RpoD-17 Strand: + Score: 81 Start: 172 End: 201 ...........................................................................................................................................................................TTTTATTTATACTTTATTAACTTTTAAGAT.......................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ ttcgaccttcctttcgcaatgctctcttcattgcaattattttttttcggtcggaaggctgttttgattggttccgttacccgcctgccgttaggcaggtcaatctaacattcgcttaacctgcatttgcggcttgtccgcaatgtcagcgttgaagcgggtgttagatgcttttatttatactttattaacttttaagattgaatttatcatatcatcatttttatactgctcgctcaattc Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 58 HP_score: -6.1 Tail_Score: -3.20712 Start: 109 End: 163 Full_Region: GGCAGGTCAATCTAA CATTCGCTTAACCTGCATTTGCGG CTTGT CCGCAATGTCAGCGTTGAAGCGGGTG TTAGATGCTTTTATT ............................................................................................................CATTCGCTTAACCTGCATTTGCGGCTTGTCCGCAATGTCAGCGTTGAAGCGGGTG................................................................................ Find igs database================================================ Query_seq: TDE1818:TDE1819|TDE1818:TDE1819:hypothetical protein:hypothetical protein:<-<-:1853882..1854124 243 ttcgaccttcctttcgcaatgctctcttcattgcaattattttttttcggtcggaaggctgttttgattggttccgttacccgcctgccgttaggcaggtcaatctaacattcgcttaacctgcatttgcggcttgtccgcaatgtcagcgttgaagcgggtgttagatgcttttatttatactttattaacttttaagattgaatttatcatatcatcatttttatactgctcgctcaattc Intra-Species Hit: Count: 1 Min: 1 Max: 243 Len: 243 Subject: NC_002967_TDE1818_TDE1819|hypothetical protein:hypothetical protein|NEGATIVE:NEGATIVE|[1853882,1854124]|243 HSP 1 e-value: 1.0E-121 bit: 434.0 Len: 243 Query Start:1 Query End:243 Subject Strand: POSITIVE Subject Start: 1 Subject End: 243 ttcgaccttcctttcgcaatgctctcttcattgcaattannnnnnnncggtcggaaggctgttttgattggttccgttacccgcctgccgttaggcaggtcaatctaacattcgcttaacctgcatttgcggcttgtccgcaatgtcagcgttgaagcgggtgttagatgcttttatttatactttattaacttttaagattgaatttatcatatcatcatttttatactgctcgctcaattc ttcgaccttcctttcgcaatgctctcttcattgcaattattttttttcggtcggaaggctgttttgattggttccgttacccgcctgccgttaggcaggtcaatctaacattcgcttaacctgcatttgcggcttgtccgcaatgtcagcgttgaagcgggtgttagatgcttttatttatactttattaacttttaagattgaatttatcatatcatcatttttatactgctcgctcaattc Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUCGACCUUCCUUUCGCAAUGCUCUCUUCAUUGCAAUUAUUUUUUUUCGGUCGGAAGGCUGUUUUGAUUGGUUCCGUUACCCGCCUGCCGUUAGGCAGGUCAAUCUAACAUUCGCUUAACCUGCAUUUGCGGCUUGUCCGCAAUGUCAGCGUUGAAGCGGGUGUUAGAUGCUUUUAUUUAUACUUUAUUAACUUUUAAGAUUGAAUUUAUCAUAUCAUCAUUUUUAUACUGCUCGCUCAAUUC ..(((.(........((((((.......)))))).............(((((....)))))...((((..((((.(((....(((((((....)))))))..(((((((((((((((((((((((((.((((.....)))))))).))).)))).)))))))))))))).............................))).))))..))))..................).)))........ (-70.00) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GAAUUGAGCGAGCAGUAUAAAAAUGAUGAUAUGAUAAAUUCAAUCUUAAAAGUUAAUAAAGUAUAAAUAAAAGCAUCUAACACCCGCUUCAACGCUGACAUUGCGGACAAGCCGCAAAUGCAGGUUAAGCGAAUGUUAGAUUGACCUGCCUAACGGCAGGCGGGUAACGGAACCAAUCAAAACAGCCUUCCGACCGAAAAAAAAUAAUUGCAAUGAAGAGAGCAUUGCGAAAGGAAGGUCGAA ...((((....................(((.(((.....))))))......((((...................((((((((..(((((.(((.(((.((((((((.....)))).)))))))))))))))..)))))))).(.((((((....)))))))...))))........))))..(.(((((((................((((((((.......))))))))..))))))).).. (-66.57) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 1057 100 51 191 142 NC_002967:TDE1818|5end_hypothetical_protein_1853791..1854021_NEGATIVE 954 160 111 176 128 NC_002967:TDE1836|5end_hypothetical_protein_1869443..1869673_NEGATIVE 954 160 111 213 165 NC_002967:TDE1831|5end_hypothetical_protein_1865032..1865262_NEGATIVE 954 160 111 178 130 NC_002967:TDE1817|5end_hypothetical_protein_1852599..1852829_NEGATIVE 954 160 111 175 127 NC_002967:TDE1811|5end_hypothetical_protein_1847483..1847713_NEGATIVE 954 160 111 213 165 NC_002967:TDE1797|5end_hypothetical_protein_1836272..1836502_NEGATIVE 954 160 111 184 136 NC_002967:TDE0267|5end_HAM1_protein_299108..299338_NEGATIVE 951 170 121 183 135 NC_002967:TDE1839|5end_hypothetical_protein_1871221..1871451_NEGATIVE 951 160 111 194 146 NC_002967:TDE1823|5end_hypothetical_protein_1856990..1857220_NEGATIVE 951 170 121 206 158 NC_002967:TDE1820|5end_hypothetical_protein_1854692..1854922_NEGATIVE 951 170 121 176 128 NC_002967:TDE1795|5end_funZ_protein,_putative_1834673..1834903_NEGATIVE 911 168 121 206 160 NC_002967:TDE1832|5end_hypothetical_protein_1865921..1866151_NEGATIVE 898 160 111 197 150 NC_002967:TDE1796|5end_hypothetical_protein_1835515..1835745_NEGATIVE 895 167 121 187 142 NC_002967:TDE1827|5end_hydrolase,_carbon-nitrogen_family_1860830..1861060_NEGATIVE 877 160 111 227 179 NC_002967:TDE1790|5end_hypothetical_protein_1828007..1828237_NEGATIVE 874 160 111 173 125 NC_002967:TDE1822|5end_hypothetical_protein_1855922..1856152_NEGATIVE 873 160 111 227 179 NC_002967:TDE1813|5end_hypothetical_protein_1848249..1848479_NEGATIVE 873 160 111 183 135 NC_002967:TDE1791|5end_hypothetical_protein_1828775..1829005_NEGATIVE 862 160 113 187 140 NC_002967:TDE0262|5end_hypothetical_protein_296300..296530_NEGATIVE 835 158 111 231 185 NC_002967:TDE1799|5end_hypothetical_protein_1837264..1837494_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 954 160 111 87 39 NC_002967:TDE1843|3end_hypothetical_protein_1872199..1872349_NEGATIVE 954 160 111 77 29 NC_002967:TDE1837|3end_hypothetical_protein_1869542..1869692_NEGATIVE 954 160 111 73 25 NC_002967:TDE1832|3end_hypothetical_protein_1865172..1865322_NEGATIVE 954 160 111 78 30 NC_002967:TDE1812|3end_hypothetical_protein_1847580..1847730_NEGATIVE 954 160 111 69 21 NC_002967:TDE1787|3end_hypothetical_protein_1826378..1826528_NEGATIVE 954 160 111 87 39 NC_002967:TDE1780|3end_hypothetical_protein_1822183..1822333_NEGATIVE 954 160 111 73 25 NC_002967:TDE0268|3end_hypothetical_protein_299219..299369_NEGATIVE 951 170 121 80 32 NC_002967:TDE1840|3end_hypothetical_protein_1871324..1871474_NEGATIVE 951 170 121 83 35 NC_002967:TDE1821|3end_hypothetical_protein_1854815..1854965_NEGATIVE 951 170 121 88 40 NC_002967:TDE1808|3end_hypothetical_protein_1844084..1844234_NEGATIVE 951 170 121 80 32 NC_002967:TDE1800|3end_hypothetical_protein_1837427..1837577_NEGATIVE 951 170 121 83 35 NC_002967:TDE1796|3end_hypothetical_protein_1834766..1834916_NEGATIVE 935 160 111 82 34 NC_002967:TDE1806|3end_hypothetical_protein_1843190..1843340_NEGATIVE 932 160 111 71 23 NC_002967:TDE0097|3end_hypothetical_protein_114801..114951_POSITIVE 927 160 111 87 39 NC_002967:TDE1793|3end_hydrolase,_carbon-nitrogen_family_1829957..1830107_NEGATIVE 921 159 111 77 30 NC_002967:TDE1789|3end_hypothetical_protein_1827338..1827488_NEGATIVE 911 168 121 85 39 NC_002967:TDE1836|3end_hypothetical_protein_1868514..1868664_NEGATIVE 905 160 111 73 25 NC_002967:TDE1810|3end_hypothetical_protein_1845924..1846074_NEGATIVE 903 160 111 104 56 NC_002967:TDE1815|3end_hypothetical_protein_1849458..1849608_NEGATIVE 898 160 111 57 10 NC_002967:TDE1831|3end_hypothetical_protein_1864415..1864565_NEGATIVE