Origin IGS: gttttaccttcacatttattttcattactatactagacatttacatctactatagaaaatatctaattagttttacactatatttttttcgttatccatatgtctaacattcgcttaacctacacttgcggcttgtccgcaatgtcaggttgaagcgggtg .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 cacccgcttcaacctgacattgcggacaagccgcaagtgtaggttaagcgaatgttagacatatggataacgaaaaaaatatagtgtaaaactaattagatattttctatagtagatgtaaatgtctagtatagtaatgaaaataaatgtgaaggtaaaac Mask Tandem Repeat Region ================================================ gttttaccttcacatttattttcattactatactagacatttacatctactatagaaaatatctaattagttttacactatatttttttcgttatccatatgtctaacattcgcttaacctacacttgcggcttgtccgcaatgtcaggttgaagcgggtg Find is-nt database================================================ Query_seq: TDE1792:TDE1793|TDE1792:TDE1793:hypothetical protein:hydrolase, carbon-nitrogen family:<-<-:1829886..1830046 161 gttttaccttcacatttattttcattactatactagacatttacatctactatagaaaatatctaattagttttacactatatttttttcgttatccatatgtctaacattcgcttaacctacacttgcggcttgtccgcaatgtcaggttgaagcgggtg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TDE1792:TDE1793|TDE1792:TDE1793:hypothetical protein:hydrolase, carbon-nitrogen family:<-<-:1829886..1830046 161 gttttaccttcacatttattttcattactatactagacatttacatctactatagaaaatatctaattagttttacactatatttttttcgttatccatatgtctaacattcgcttaacctacacttgcggcttgtccgcaatgtcaggttgaagcgggtg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TDE1792:TDE1793|TDE1792:TDE1793:hypothetical protein:hydrolase, carbon-nitrogen family:<-<-:1829886..1830046 161 gttttaccttcacatttattttcattactatactagacatttacatctactatagaaaatatctaattagttttacactatatttttttcgttatccatatgtctaacattcgcttaacctacacttgcggcttgtccgcaatgtcaggttgaagcgggtg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gttttaccttcacatttattttcattactatactagacatttacatctactatagaaaatatctaattagttttacactatatttttttcgttatccatatgtctaacattcgcttaacctacacttgcggcttgtccgcaatgtcaggttgaagcgggtg Predict ORF larger than 30AA ================================================ gttttaccttcacatttattttcattactatactagacatttacatctactatagaaaatatctaattagttttacactatatttttttcgttatccatatgtctaacattcgcttaacctacacttgcggcttgtccgcaatgtcaggttgaagcgggtg 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: 2 End: 31 .TTTTACCTTCACATTTATTTTCATTACTAT.................................................................................................................................. Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ gttttaccttcacatttattttcattactatactagacatttacatctactatagaaaatatctaattagttttacactatatttttttcgttatccatatgtctaacattcgcttaacctacacttgcggcttgtccgcaatgtcaggttgaagcgggtg Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 40 HP_score: -2.0 Tail_Score: -2.80537 Start: 53 End: 65 Full_Region: CATTTACATCTACTA TAGA AAATA TCTA ATTAGTTTTACACTA ....................................................TAGAAAATATCTA................................................................................................ Find igs database================================================ Query_seq: TDE1792:TDE1793|TDE1792:TDE1793:hypothetical protein:hydrolase, carbon-nitrogen family:<-<-:1829886..1830046 161 gttttaccttcacatttattttcattactatactagacatttacatctactatagaaaatatctaattagttttacactatatttttttcgttatccatatgtctaacattcgcttaacctacacttgcggcttgtccgcaatgtcaggttgaagcgggtg Intra-Species Hit: Count: 2 Min: 1 Max: 161 Len: 161 Subject: NC_002967_TDE1792_TDE1793|hypothetical protein:hydrolase, carbon-nitrogen family|NEGATIVE:NEGATIVE|[1829886,1830046]|161 HSP 1 e-value: 5.0E-74 bit: 278.0 Len: 161 Query Start:1 Query End:161 Subject Strand: POSITIVE Subject Start: 1 Subject End: 161 gttttaccttcacatttattttcattactatactagacatttacatctactatagaaaatatctaattagttttacactatannnnnnncgttatccatatgtctaacattcgcttaacctacacttgcggcttgtccgcaatgtcaggttgaagcgggtg gttttaccttcacatttattttcattactatactagacatttacatctactatagaaaatatctaattagttttacactatatttttttcgttatccatatgtctaacattcgcttaacctacacttgcggcttgtccgcaatgtcaggttgaagcgggtg Subject: NC_002967_TDE1814_TDE1815|hypothetical protein:hypothetical protein|NEGATIVE:NEGATIVE|[1849404,1849547]|144 HSP 1 e-value: 1.0E-56 bit: 220.0 Len: 144 Query Start:1 Query End:144 Subject Strand: POSITIVE Subject Start: 1 Subject End: 144 gttttaccttcacatttattttcattactatactagacatttacatctactatagaaaatatctaattagttttacactatannnnnnncgttatccatatgtctaacattcgcttaacctacacttgcggcttgtccgcaatg................. gttttaccttcacatttattttcattactatactagacatttacatctactatagaaaatatctaattagttttacactatatttttttcgttatccatatgtctaacattcgcttaacctgcagttgcggctcgtccgcaatg................. Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GUUUUACCUUCACAUUUAUUUUCAUUACUAUACUAGACAUUUACAUCUACUAUAGAAAAUAUCUAAUUAGUUUUACACUAUAUUUUUUUCGUUAUCCAUAUGUCUAACAUUCGCUUAACCUACACUUGCGGCUUGUCCGCAAUGUCAGGUUGAAGCGGGUG .................................(((((((........((...((((((((......((((.....))))))))))))..)).......))))))).(((((((((((((((((.((((((.....))))))))).)))))).)))))))) (-36.26) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CACCCGCUUCAACCUGACAUUGCGGACAAGCCGCAAGUGUAGGUUAAGCGAAUGUUAGACAUAUGGAUAACGAAAAAAAUAUAGUGUAAAACUAAUUAGAUAUUUUCUAUAGUAGAUGUAAAUGUCUAGUAUAGUAAUGAAAAUAAAUGUGAAGGUAAAAC .((((((((.((((((...((((((.....))))))...))))))))))).........(((((..((.............((((.....))))......((((..(((((.(((((......))))).))))).))))...))..)))))..)))..... (-40.90) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 941 140 91 231 182 NC_002967:TDE1792|5end_hypothetical_protein_1829795..1830025_NEGATIVE 912 160 111 178 129 NC_002967:TDE1836|5end_hypothetical_protein_1869443..1869673_NEGATIVE 912 160 111 215 166 NC_002967:TDE1831|5end_hypothetical_protein_1865032..1865262_NEGATIVE 912 160 111 180 131 NC_002967:TDE1817|5end_hypothetical_protein_1852599..1852829_NEGATIVE 912 160 111 177 128 NC_002967:TDE1811|5end_hypothetical_protein_1847483..1847713_NEGATIVE 912 160 111 215 166 NC_002967:TDE1797|5end_hypothetical_protein_1836272..1836502_NEGATIVE 912 160 111 186 137 NC_002967:TDE0267|5end_HAM1_protein_299108..299338_NEGATIVE 896 160 111 229 180 NC_002967:TDE1790|5end_hypothetical_protein_1828007..1828237_NEGATIVE 891 160 111 199 151 NC_002967:TDE1796|5end_hypothetical_protein_1835515..1835745_NEGATIVE 870 160 111 196 146 NC_002967:TDE1823|5end_hypothetical_protein_1856990..1857220_NEGATIVE 865 160 111 182 131 NC_002967:TDE1827|5end_hydrolase,_carbon-nitrogen_family_1860830..1861060_NEGATIVE 865 160 111 168 117 NC_002967:TDE1795|5end_funZ_protein,_putative_1834673..1834903_NEGATIVE 863 160 111 200 151 NC_002967:TDE1832|5end_hypothetical_protein_1865921..1866151_NEGATIVE 831 160 111 229 180 NC_002967:TDE1813|5end_hypothetical_protein_1848249..1848479_NEGATIVE 831 160 111 185 136 NC_002967:TDE1791|5end_hypothetical_protein_1828775..1829005_NEGATIVE 821 160 111 175 125 NC_002967:TDE1839|5end_hypothetical_protein_1871221..1871451_NEGATIVE 821 160 111 198 148 NC_002967:TDE1820|5end_hypothetical_protein_1854692..1854922_NEGATIVE 814 140 91 231 182 NC_002967:TDE1814|5end_hypothetical_protein_1849313..1849543_NEGATIVE 793 160 111 175 125 NC_002967:TDE1822|5end_hypothetical_protein_1855922..1856152_NEGATIVE 754 160 111 177 124 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 918 160 111 78 27 NC_002967:TDE1776|3end_hypothetical_protein_1818414..1818564_NEGATIVE 912 160 111 89 40 NC_002967:TDE1843|3end_hypothetical_protein_1872199..1872349_NEGATIVE 912 160 111 79 30 NC_002967:TDE1837|3end_hypothetical_protein_1869542..1869692_NEGATIVE 912 160 111 75 26 NC_002967:TDE1832|3end_hypothetical_protein_1865172..1865322_NEGATIVE 912 160 111 106 57 NC_002967:TDE1815|3end_hypothetical_protein_1849458..1849608_NEGATIVE 912 160 111 80 31 NC_002967:TDE1812|3end_hypothetical_protein_1847580..1847730_NEGATIVE 912 160 111 71 22 NC_002967:TDE1787|3end_hypothetical_protein_1826378..1826528_NEGATIVE 912 160 111 89 40 NC_002967:TDE1780|3end_hypothetical_protein_1822183..1822333_NEGATIVE 912 160 111 75 26 NC_002967:TDE0268|3end_hypothetical_protein_299219..299369_NEGATIVE 893 160 111 84 35 NC_002967:TDE1806|3end_hypothetical_protein_1843190..1843340_NEGATIVE 891 160 111 59 11 NC_002967:TDE1831|3end_hypothetical_protein_1864415..1864565_NEGATIVE 891 160 111 59 11 NC_002967:TDE1797|3end_hypothetical_protein_1835655..1835805_NEGATIVE 882 160 111 80 31 NC_002967:TDE1789|3end_hypothetical_protein_1827338..1827488_NEGATIVE 865 160 111 78 27 NC_002967:TDE1828|3end_hypothetical_protein_1860934..1861084_NEGATIVE 865 160 111 75 24 NC_002967:TDE1796|3end_hypothetical_protein_1834766..1834916_NEGATIVE 863 160 111 79 30 NC_002967:TDE1836|3end_hypothetical_protein_1868514..1868664_NEGATIVE 863 160 111 75 26 NC_002967:TDE1810|3end_hypothetical_protein_1845924..1846074_NEGATIVE 863 160 111 80 31 NC_002967:TDE1808|3end_hypothetical_protein_1844084..1844234_NEGATIVE 842 160 111 84 34 NC_002967:TDE1811|3end_hypothetical_protein_1846773..1846923_NEGATIVE 828 160 111 73 23 NC_002967:TDE0097|3end_hypothetical_protein_114801..114951_POSITIVE