Origin IGS: tttctctcctgcgccgaaggcgtcaacctaacatccgcttgacctgcatttgcggcttgtccgcaatgtcaggttgaagcgggtgttagacgaattgaattt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aaattcaattcgtctaacacccgcttcaacctgacattgcggacaagccgcaaatgcaggtcaagcggatgttaggttgacgccttcggcgcaggagagaaa Mask Tandem Repeat Region ================================================ tttctctcctgcgccgaaggcgtcaacctaacatccgcttgacctgcatttgcggcttgtccgcaatgtcaggttgaagcgggtgttagacgaattgaattt Find is-nt database================================================ Query_seq: TDE1839:TDE1840|TDE1839:TDE1840:hypothetical protein:hypothetical protein:<-<-:1871312..1871413 102 tttctctcctgcgccgaaggcgtcaacctaacatccgcttgacctgcatttgcggcttgtccgcaatgtcaggttgaagcgggtgttagacgaattgaattt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TDE1839:TDE1840|TDE1839:TDE1840:hypothetical protein:hypothetical protein:<-<-:1871312..1871413 102 tttctctcctgcgccgaaggcgtcaacctaacatccgcttgacctgcatttgcggcttgtccgcaatgtcaggttgaagcgggtgttagacgaattgaattt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TDE1839:TDE1840|TDE1839:TDE1840:hypothetical protein:hypothetical protein:<-<-:1871312..1871413 102 tttctctcctgcgccgaaggcgtcaacctaacatccgcttgacctgcatttgcggcttgtccgcaatgtcaggttgaagcgggtgttagacgaattgaattt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tttctctcctgcgccgaaggcgtcaacctaacatccgcttgacctgcatttgcggcttgtccgcaatgtcaggttgaagcgggtgttagacgaattgaattt Predict ORF larger than 30AA ================================================ tttctctcctgcgccgaaggcgtcaacctaacatccgcttgacctgcatttgcggcttgtccgcaatgtcaggttgaagcgggtgttagacgaattgaattt 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================================================ tttctctcctgcgccgaaggcgtcaacctaacatccgcttgacctgcatttgcggcttgtccgcaatgtcaggttgaagcgggtgttagacgaattgaattt Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 65 HP_score: -9.1 Tail_Score: -3.17571 Start: 32 End: 85 Full_Region: attcaattcgtctaa cacccgcttcaacctgacattgcgg acaag ccgcaaatgcaggtcaagcggatg ttaggttgacgcctt ...............................cacccgcttcaacctgacattgcggacaagccgcaaatgcaggtcaagcggatg................. TransTerm Strand: + Conf: 69 HP_score: -10.3 Tail_Score: -3.03159 Start: 34 End: 83 Full_Region: GGCGTCAACCTAACA TCCGCTTGACCTGCATTTGCGG CTTGT CCGCAATGTCAGGTTGAAGCGGG TGTTAGACGAATTGA .................................TCCGCTTGACCTGCATTTGCGGCTTGTCCGCAATGTCAGGTTGAAGCGGG................... Find igs database================================================ Query_seq: TDE1839:TDE1840|TDE1839:TDE1840:hypothetical protein:hypothetical protein:<-<-:1871312..1871413 102 tttctctcctgcgccgaaggcgtcaacctaacatccgcttgacctgcatttgcggcttgtccgcaatgtcaggttgaagcgggtgttagacgaattgaattt Intra-Species Hit: Count: 1 Min: 1 Max: 102 Len: 102 Subject: NC_002967_TDE1839_TDE1840|hypothetical protein:hypothetical protein|NEGATIVE:NEGATIVE|[1871312,1871413]|102 HSP 1 e-value: 2.0E-51 bit: 202.0 Len: 102 Query Start:1 Query End:102 Subject Strand: POSITIVE Subject Start: 1 Subject End: 102 tttctctcctgcgccgaaggcgtcaacctaacatccgcttgacctgcatttgcggcttgtccgcaatgtcaggttgaagcgggtgttagacgaattgaattt tttctctcctgcgccgaaggcgtcaacctaacatccgcttgacctgcatttgcggcttgtccgcaatgtcaggttgaagcgggtgttagacgaattgaattt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUCUCUCCUGCGCCGAAGGCGUCAACCUAACAUCCGCUUGACCUGCAUUUGCGGCUUGUCCGCAAUGUCAGGUUGAAGCGGGUGUUAGACGAAUUGAAUUU .(((......(((((...)))))....(((((((((((((((((((((((.((((.....)))))))).)))))).)))))))))))))..)))........ (-45.40) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAAUUCAAUUCGUCUAACACCCGCUUCAACCUGACAUUGCGGACAAGCCGCAAAUGCAGGUCAAGCGGAUGUUAGGUUGACGCCUUCGGCGCAGGAGAGAAA ...(((..(((.(((((((.((((((..(((((.((((((((.....)))).))))))))).)))))).)))))))..(.((((...))))).)))..))). (-41.70) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 1082 60 11 151 102 NC_002967:TDE1839|5end_hypothetical_protein_1871221..1871451_NEGATIVE 1036 80 31 194 145 NC_002967:TDE1820|5end_hypothetical_protein_1854692..1854922_NEGATIVE 1036 80 31 231 182 NC_002967:TDE1799|5end_hypothetical_protein_1837264..1837494_NEGATIVE 1032 90 41 206 157 NC_002967:TDE1832|5end_hypothetical_protein_1865921..1866151_NEGATIVE 1013 80 31 192 143 NC_002967:TDE1823|5end_hypothetical_protein_1856990..1857220_NEGATIVE 975 90 41 184 131 NC_002967:TDE1836|5end_hypothetical_protein_1869443..1869673_NEGATIVE 975 90 41 221 168 NC_002967:TDE1831|5end_hypothetical_protein_1865032..1865262_NEGATIVE 975 90 41 186 133 NC_002967:TDE1817|5end_hypothetical_protein_1852599..1852829_NEGATIVE 975 90 41 174 121 NC_002967:TDE1795|5end_funZ_protein,_putative_1834673..1834903_NEGATIVE 959 89 41 187 135 NC_002967:TDE1827|5end_hydrolase,_carbon-nitrogen_family_1860830..1861060_NEGATIVE 959 89 41 182 130 NC_002967:TDE1811|5end_hypothetical_protein_1847483..1847713_NEGATIVE 959 89 41 220 168 NC_002967:TDE1797|5end_hypothetical_protein_1836272..1836502_NEGATIVE 959 89 41 191 139 NC_002967:TDE0267|5end_HAM1_protein_299108..299338_NEGATIVE 919 90 41 205 153 NC_002967:TDE1796|5end_hypothetical_protein_1835515..1835745_NEGATIVE 898 90 41 181 128 NC_002967:TDE1822|5end_hypothetical_protein_1855922..1856152_NEGATIVE 894 90 41 191 138 NC_002967:TDE1791|5end_hypothetical_protein_1828775..1829005_NEGATIVE 861 80 31 225 176 NC_002967:TDE1790|5end_hypothetical_protein_1828007..1828237_NEGATIVE 857 80 31 225 176 NC_002967:TDE1813|5end_hypothetical_protein_1848249..1848479_NEGATIVE 849 50 1 141 92 NC_002967:TDE0268|5end_hypothetical_protein_300049..300279_NEGATIVE 830 80 35 173 126 NC_002967:TDE1803|5end_hypothetical_protein_1839270..1839500_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 1036 80 31 71 22 NC_002967:TDE1821|3end_hypothetical_protein_1854815..1854965_NEGATIVE 1036 80 31 68 19 NC_002967:TDE1800|3end_hypothetical_protein_1837427..1837577_NEGATIVE 1032 90 41 85 36 NC_002967:TDE1836|3end_hypothetical_protein_1868514..1868664_NEGATIVE 1032 90 41 86 37 NC_002967:TDE1808|3end_hypothetical_protein_1844084..1844234_NEGATIVE 1016 89 41 80 32 NC_002967:TDE1810|3end_hypothetical_protein_1845924..1846074_NEGATIVE 994 80 31 69 20 NC_002967:TDE0097|3end_hypothetical_protein_114801..114951_POSITIVE 975 90 41 85 32 NC_002967:TDE1837|3end_hypothetical_protein_1869542..1869692_NEGATIVE 975 90 41 81 28 NC_002967:TDE1832|3end_hypothetical_protein_1865172..1865322_NEGATIVE 975 90 41 81 28 NC_002967:TDE1796|3end_hypothetical_protein_1834766..1834916_NEGATIVE 975 90 41 77 24 NC_002967:TDE1787|3end_hypothetical_protein_1826378..1826528_NEGATIVE 959 89 41 94 42 NC_002967:TDE1843|3end_hypothetical_protein_1872199..1872349_NEGATIVE 959 89 41 83 31 NC_002967:TDE1828|3end_hypothetical_protein_1860934..1861084_NEGATIVE 959 89 41 85 33 NC_002967:TDE1812|3end_hypothetical_protein_1847580..1847730_NEGATIVE 959 89 41 94 42 NC_002967:TDE1780|3end_hypothetical_protein_1822183..1822333_NEGATIVE 959 89 41 80 28 NC_002967:TDE0268|3end_hypothetical_protein_299219..299369_NEGATIVE 956 90 41 90 37 NC_002967:TDE1806|3end_hypothetical_protein_1843190..1843340_NEGATIVE 938 80 31 76 27 NC_002967:TDE1789|3end_hypothetical_protein_1827338..1827488_NEGATIVE 932 89 41 94 42 NC_002967:TDE1793|3end_hydrolase,_carbon-nitrogen_family_1829957..1830107_NEGATIVE 931 89 41 83 31 NC_002967:TDE1776|3end_hypothetical_protein_1818414..1818564_NEGATIVE 919 90 41 65 13 NC_002967:TDE1831|3end_hypothetical_protein_1864415..1864565_NEGATIVE