Origin IGS: ttgcgtattccttattgtattaaatcttgtcaaactaactaccgcttaacctgcatttgcggctcgtccgcaatgtcaggttgaagcgggtgttaggttgtat .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 atacaacctaacacccgcttcaacctgacattgcggacgagccgcaaatgcaggttaagcggtagttagtttgacaagatttaatacaataaggaatacgcaa Mask Tandem Repeat Region ================================================ ttgcgtattccttattgtattaaatcttgtcaaactaactaccgcttaacctgcatttgcggctcgtccgcaatgtcaggttgaagcgggtgttaggttgtat Find is-nt database================================================ Query_seq: TDE1827:TDE1828|TDE1827:TDE1828:hydrolase, carbon-nitrogen family:hypothetical protein:<-<-:1860921..1861023 103 ttgcgtattccttattgtattaaatcttgtcaaactaactaccgcttaacctgcatttgcggctcgtccgcaatgtcaggttgaagcgggtgttaggttgtat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TDE1827:TDE1828|TDE1827:TDE1828:hydrolase, carbon-nitrogen family:hypothetical protein:<-<-:1860921..1861023 103 ttgcgtattccttattgtattaaatcttgtcaaactaactaccgcttaacctgcatttgcggctcgtccgcaatgtcaggttgaagcgggtgttaggttgtat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TDE1827:TDE1828|TDE1827:TDE1828:hydrolase, carbon-nitrogen family:hypothetical protein:<-<-:1860921..1861023 103 ttgcgtattccttattgtattaaatcttgtcaaactaactaccgcttaacctgcatttgcggctcgtccgcaatgtcaggttgaagcgggtgttaggttgtat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ttgcgtattccttattgtattaaatcttgtcaaactaactaccgcttaacctgcatttgcggctcgtccgcaatgtcaggttgaagcgggtgttaggttgtat Predict ORF larger than 30AA ================================================ ttgcgtattccttattgtattaaatcttgtcaaactaactaccgcttaacctgcatttgcggctcgtccgcaatgtcaggttgaagcgggtgttaggttgtat 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================================================ ttgcgtattccttattgtattaaatcttgtcaaactaactaccgcttaacctgcatttgcggctcgtccgcaatgtcaggttgaagcgggtgttaggttgtat Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 73 HP_score: -9.1 Tail_Score: -3.51411 Start: 39 End: 92 Full_Region: atacaacctaa cacccgcttcaacctgacattgcgg acgag ccgcaaatgcaggttaagcggtag ttagtttgacaagat ......................................cacccgcttcaacctgacattgcggacgagccgcaaatgcaggttaagcggtag........... TransTerm Strand: - Conf: 95 HP_score: -13.8 Tail_Score: -2.89569 Start: 42 End: 89 Full_Region: atacaacctaacac ccgcttcaacctgacattgcgg acgag ccgcaaatgcaggttaagcgg tagttagtttgacaa .........................................ccgcttcaacctgacattgcggacgagccgcaaatgcaggttaagcgg.............. Find igs database================================================ Query_seq: TDE1827:TDE1828|TDE1827:TDE1828:hydrolase, carbon-nitrogen family:hypothetical protein:<-<-:1860921..1861023 103 ttgcgtattccttattgtattaaatcttgtcaaactaactaccgcttaacctgcatttgcggctcgtccgcaatgtcaggttgaagcgggtgttaggttgtat Intra-Species Hit: Count: 1 Min: 1 Max: 103 Len: 103 Subject: NC_002967_TDE1827_TDE1828|hydrolase, carbon-nitrogen family:hypothetical protein|NEGATIVE:NEGATIVE|[1860921,1861023]|103 HSP 1 e-value: 4.0E-52 bit: 204.0 Len: 103 Query Start:1 Query End:103 Subject Strand: POSITIVE Subject Start: 1 Subject End: 103 ttgcgtattccttattgtattaaatcttgtcaaactaactaccgcttaacctgcatttgcggctcgtccgcaatgtcaggttgaagcgggtgttaggttgtat ttgcgtattccttattgtattaaatcttgtcaaactaactaccgcttaacctgcatttgcggctcgtccgcaatgtcaggttgaagcgggtgttaggttgtat Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUGCGUAUUCCUUAUUGUAUUAAAUCUUGUCAAACUAACUACCGCUUAACCUGCAUUUGCGGCUCGUCCGCAAUGUCAGGUUGAAGCGGGUGUUAGGUUGUAU ..............................(((.(((((..((((((((((((((((.((((.....)))))))).))))))).)))))..))))).)))... (-34.90) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUACAACCUAACACCCGCUUCAACCUGACAUUGCGGACGAGCCGCAAAUGCAGGUUAAGCGGUAGUUAGUUUGACAAGAUUUAAUACAAUAAGGAAUACGCAA ...(((.(((((..((((((.((((((.((((((((.....)))).))))))))))))))))..))))).))).............................. (-36.30) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 1081 90 41 181 132 NC_002967:TDE1827|5end_hydrolase,_carbon-nitrogen_family_1860830..1861060_NEGATIVE 1032 90 43 177 130 NC_002967:TDE1836|5end_hypothetical_protein_1869443..1869673_NEGATIVE 1032 90 43 176 129 NC_002967:TDE1811|5end_hypothetical_protein_1847483..1847713_NEGATIVE 1032 90 43 185 138 NC_002967:TDE0267|5end_HAM1_protein_299108..299338_NEGATIVE 1016 90 42 197 149 NC_002967:TDE1820|5end_hypothetical_protein_1854692..1854922_NEGATIVE 989 90 42 195 147 NC_002967:TDE1823|5end_hypothetical_protein_1856990..1857220_NEGATIVE 989 90 42 167 119 NC_002967:TDE1795|5end_funZ_protein,_putative_1834673..1834903_NEGATIVE 976 90 43 198 152 NC_002967:TDE1796|5end_hypothetical_protein_1835515..1835745_NEGATIVE 956 90 43 214 167 NC_002967:TDE1831|5end_hypothetical_protein_1865032..1865262_NEGATIVE 956 90 43 179 132 NC_002967:TDE1817|5end_hypothetical_protein_1852599..1852829_NEGATIVE 956 90 43 214 167 NC_002967:TDE1797|5end_hypothetical_protein_1836272..1836502_NEGATIVE 955 90 43 228 181 NC_002967:TDE1790|5end_hypothetical_protein_1828007..1828237_NEGATIVE 940 90 42 174 126 NC_002967:TDE1839|5end_hypothetical_protein_1871221..1871451_NEGATIVE 915 99 51 208 160 NC_002967:TDE1832|5end_hypothetical_protein_1865921..1866151_NEGATIVE 912 90 42 174 126 NC_002967:TDE1822|5end_hypothetical_protein_1855922..1856152_NEGATIVE 897 90 41 176 125 NC_002967:TDE1803|5end_hypothetical_protein_1839270..1839500_NEGATIVE 875 90 43 228 181 NC_002967:TDE1813|5end_hypothetical_protein_1848249..1848479_NEGATIVE 875 90 43 184 137 NC_002967:TDE1791|5end_hypothetical_protein_1828775..1829005_NEGATIVE 840 87 42 231 186 NC_002967:TDE1799|5end_hypothetical_protein_1837264..1837494_NEGATIVE 799 60 11 151 102 NC_002967:TDE1793|5end_hydrolase,_carbon-nitrogen_family_1830844..1831074_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 1053 90 41 77 28 NC_002967:TDE1776|3end_hypothetical_protein_1818414..1818564_NEGATIVE 1032 90 43 78 31 NC_002967:TDE1837|3end_hypothetical_protein_1869542..1869692_NEGATIVE 1032 90 43 79 32 NC_002967:TDE1812|3end_hypothetical_protein_1847580..1847730_NEGATIVE 1032 90 43 70 23 NC_002967:TDE1787|3end_hypothetical_protein_1826378..1826528_NEGATIVE 1032 90 43 88 41 NC_002967:TDE1780|3end_hypothetical_protein_1822183..1822333_NEGATIVE 1032 90 43 74 27 NC_002967:TDE0268|3end_hypothetical_protein_299219..299369_NEGATIVE 1016 90 42 74 26 NC_002967:TDE1821|3end_hypothetical_protein_1854815..1854965_NEGATIVE 1013 90 43 83 36 NC_002967:TDE1806|3end_hypothetical_protein_1843190..1843340_NEGATIVE 999 90 42 83 35 NC_002967:TDE1811|3end_hypothetical_protein_1846773..1846923_NEGATIVE 991 98 51 87 40 NC_002967:TDE1808|3end_hypothetical_protein_1844084..1844234_NEGATIVE 989 90 42 74 26 NC_002967:TDE1796|3end_hypothetical_protein_1834766..1834916_NEGATIVE 981 90 43 105 58 NC_002967:TDE1815|3end_hypothetical_protein_1849458..1849608_NEGATIVE 976 90 43 58 12 NC_002967:TDE1831|3end_hypothetical_protein_1864415..1864565_NEGATIVE 976 90 43 58 12 NC_002967:TDE1797|3end_hypothetical_protein_1835655..1835805_NEGATIVE 956 90 43 88 41 NC_002967:TDE1843|3end_hypothetical_protein_1872199..1872349_NEGATIVE 956 90 43 74 27 NC_002967:TDE1832|3end_hypothetical_protein_1865172..1865322_NEGATIVE 947 99 51 83 35 NC_002967:TDE1810|3end_hypothetical_protein_1845924..1846074_NEGATIVE 940 90 42 71 23 NC_002967:TDE1840|3end_hypothetical_protein_1871324..1871474_NEGATIVE 940 90 42 71 23 NC_002967:TDE1800|3end_hypothetical_protein_1837427..1837577_NEGATIVE 937 89 42 71 24 NC_002967:TDE0097|3end_hypothetical_protein_114801..114951_POSITIVE