Origin IGS: ttttatgatacaatatcaatacctactacaataaaatttgaaaaaattattctttttttgcaccgcgaaagcggtgtcatgctaacattcgcttaacctgcatttgtggcttgtccgcaatgtcaggttgaagcgggtgttagacattattttccattaatcatttcccaaagttaata .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tattaactttgggaaatgattaatggaaaataatgtctaacacccgcttcaacctgacattgcggacaagccacaaatgcaggttaagcgaatgttagcatgacaccgctttcgcggtgcaaaaaaagaataattttttcaaattttattgtagtaggtattgatattgtatcataaaa Mask Tandem Repeat Region ================================================ ttttatgatacaatatcaatacctactacaataaaatttgaaaaaattattctttttttgcaccgcgaaagcggtgtcatgctaacattcgcttaacctgcatttgtggcttgtccgcaatgtcaggttgaagcgggtgttagacattattttccattaatcatttcccaaagttaata Find is-nt database================================================ Query_seq: TDE1813:TDE1814|TDE1813:TDE1814:hypothetical protein:hypothetical protein:<-<-:1848340..1848518 179 ttttatgatacaatatcaatacctactacaataaaatttgaaaaaattattctttttttgcaccgcgaaagcggtgtcatgctaacattcgcttaacctgcatttgtggcttgtccgcaatgtcaggttgaagcgggtgttagacattattttccattaatcatttcccaaagttaata Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TDE1813:TDE1814|TDE1813:TDE1814:hypothetical protein:hypothetical protein:<-<-:1848340..1848518 179 ttttatgatacaatatcaatacctactacaataaaatttgaaaaaattattctttttttgcaccgcgaaagcggtgtcatgctaacattcgcttaacctgcatttgtggcttgtccgcaatgtcaggttgaagcgggtgttagacattattttccattaatcatttcccaaagttaata Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TDE1813:TDE1814|TDE1813:TDE1814:hypothetical protein:hypothetical protein:<-<-:1848340..1848518 179 ttttatgatacaatatcaatacctactacaataaaatttgaaaaaattattctttttttgcaccgcgaaagcggtgtcatgctaacattcgcttaacctgcatttgtggcttgtccgcaatgtcaggttgaagcgggtgttagacattattttccattaatcatttcccaaagttaata Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ttttatgatacaatatcaatacctactacaataaaatttgaaaaaattattctttttttgcaccgcgaaagcggtgtcatgctaacattcgcttaacctgcatttgtggcttgtccgcaatgtcaggttgaagcgggtgttagacattattttccattaatcatttcccaaagttaata Predict ORF larger than 30AA ================================================ ttttatgatacaatatcaatacctactacaataaaatttgaaaaaattattctttttttgcaccgcgaaagcggtgtcatgctaacattcgcttaacctgcatttgtggcttgtccgcaatgtcaggttgaagcgggtgttagacattattttccattaatcatttcccaaagttaata 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================================================ ttttatgatacaatatcaatacctactacaataaaatttgaaaaaattattctttttttgcaccgcgaaagcggtgtcatgctaacattcgcttaacctgcatttgtggcttgtccgcaatgtcaggttgaagcgggtgttagacattattttccattaatcatttcccaaagttaata Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 53 HP_score: -5.3 Tail_Score: -3.08349 Start: 88 End: 137 Full_Region: GGTGTCATGCTAACA TTCGCTTAACCTGCATTTGTGG CTTGT CCGCAATGTCAGGTTGAAGCGGG TGTTAGACATTATTT .......................................................................................TTCGCTTAACCTGCATTTGTGGCTTGTCCGCAATGTCAGGTTGAAGCGGG.......................................... Find igs database================================================ Query_seq: TDE1813:TDE1814|TDE1813:TDE1814:hypothetical protein:hypothetical protein:<-<-:1848340..1848518 179 ttttatgatacaatatcaatacctactacaataaaatttgaaaaaattattctttttttgcaccgcgaaagcggtgtcatgctaacattcgcttaacctgcatttgtggcttgtccgcaatgtcaggttgaagcgggtgttagacattattttccattaatcatttcccaaagttaata Intra-Species Hit: Count: 2 Min: 1 Max: 179 Len: 179 Subject: NC_002967_TDE1813_TDE1814|hypothetical protein:hypothetical protein|NEGATIVE:NEGATIVE|[1848340,1848518]|179 HSP 1 e-value: 1.0E-84 bit: 313.0 Len: 179 Query Start:1 Query End:179 Subject Strand: POSITIVE Subject Start: 1 Subject End: 179 ttttatgatacaatatcaatacctactacaataaaatttgaaaaaattattcnnnnnnngcaccgcgaaagcggtgtcatgctaacattcgcttaacctgcatttgtggcttgtccgcaatgtcaggttgaagcgggtgttagacattattttccattaatcatttcccaaagttaata ttttatgatacaatatcaatacctactacaataaaatttgaaaaaattattctttttttgcaccgcgaaagcggtgtcatgctaacattcgcttaacctgcatttgtggcttgtccgcaatgtcaggttgaagcgggtgttagacattattttccattaatcatttcccaaagttaata Subject: NC_002967_TDE1790_TDE1791|hypothetical protein:hypothetical protein|NEGATIVE:NEGATIVE|[1828098,1828397]|300 HSP 1 e-value: 5.0E-53 bit: 208.0 Len: 142 Query Start:1 Query End:142 Subject Strand: POSITIVE Subject Start: 1 Subject End: 142 ttttatgatacaatatcaatacctactacaataaaatttgaaaaaattattcnnnnnnngcaccgcgaaagcggtgtcatgctaacattcgcttaacctgcatttgtggcttgtccgcaatgtcaggttgaagcgggtgtta..................................... ttttatgatacaatatcaatacctactacaataaaatttaaaaaaattattctttttttgcaccgcgaaagcggtgtcatgctaacattcgcttaacctgtatttgcggctcgtccgcaatgtcaggttgaagcgggtgtta..................................... Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUUAUGAUACAAUAUCAAUACCUACUACAAUAAAAUUUGAAAAAAUUAUUCUUUUUUUGCACCGCGAAAGCGGUGUCAUGCUAACAUUCGCUUAACCUGCAUUUGUGGCUUGUCCGCAAUGUCAGGUUGAAGCGGGUGUUAGACAUUAUUUUCCAUUAAUCAUUUCCCAAAGUUAAUA ....(((((.........................(((((....)))))...........(((((((....))))))).((((((((((((((((((((((((((.((((.....)))))))).))))))).)))))))))))).)))............)))))............... (-54.60) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAUUAACUUUGGGAAAUGAUUAAUGGAAAAUAAUGUCUAACACCCGCUUCAACCUGACAUUGCGGACAAGCCACAAAUGCAGGUUAAGCGAAUGUUAGCAUGACACCGCUUUCGCGGUGCAAAAAAAGAAUAAUUUUUUCAAAUUUUAUUGUAGUAGGUAUUGAUAUUGUAUCAUAAAA .....((((.....(((((....(((((((..(((.((((((..(((((.((((((.(((((.((.....)).).)))))))))))))))..)))))))))..((((((....))))))...............)))))))....))))).....))))..(((((...)))))..... (-47.60) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 1008 140 91 231 182 NC_002967:TDE1813|5end_hypothetical_protein_1848249..1848479_NEGATIVE 1008 140 91 187 138 NC_002967:TDE1791|5end_hypothetical_protein_1828775..1829005_NEGATIVE 1004 140 91 180 131 NC_002967:TDE1836|5end_hypothetical_protein_1869443..1869673_NEGATIVE 1004 140 91 217 168 NC_002967:TDE1831|5end_hypothetical_protein_1865032..1865262_NEGATIVE 1004 140 91 184 135 NC_002967:TDE1827|5end_hydrolase,_carbon-nitrogen_family_1860830..1861060_NEGATIVE 1004 140 91 198 149 NC_002967:TDE1823|5end_hypothetical_protein_1856990..1857220_NEGATIVE 1004 140 91 182 133 NC_002967:TDE1817|5end_hypothetical_protein_1852599..1852829_NEGATIVE 1004 140 91 179 130 NC_002967:TDE1811|5end_hypothetical_protein_1847483..1847713_NEGATIVE 1004 140 91 217 168 NC_002967:TDE1797|5end_hypothetical_protein_1836272..1836502_NEGATIVE 1004 140 91 170 121 NC_002967:TDE1795|5end_funZ_protein,_putative_1834673..1834903_NEGATIVE 1004 140 91 188 139 NC_002967:TDE0267|5end_HAM1_protein_299108..299338_NEGATIVE 955 140 91 177 128 NC_002967:TDE1839|5end_hypothetical_protein_1871221..1871451_NEGATIVE 955 140 91 202 153 NC_002967:TDE1832|5end_hypothetical_protein_1865921..1866151_NEGATIVE 955 140 91 200 151 NC_002967:TDE1820|5end_hypothetical_protein_1854692..1854922_NEGATIVE 948 140 91 201 153 NC_002967:TDE1796|5end_hypothetical_protein_1835515..1835745_NEGATIVE 937 100 51 191 142 NC_002967:TDE1790|5end_hypothetical_protein_1828007..1828237_NEGATIVE 927 140 91 177 128 NC_002967:TDE1822|5end_hypothetical_protein_1855922..1856152_NEGATIVE 893 140 91 179 128 NC_002967:TDE1803|5end_hypothetical_protein_1839270..1839500_NEGATIVE 869 130 82 227 179 NC_002967:TDE1799|5end_hypothetical_protein_1837264..1837494_NEGATIVE 810 140 91 191 141 NC_002967:TDE0262|5end_hypothetical_protein_296300..296530_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 1008 140 91 51 2 NC_002967:TDE1792|3end_hypothetical_protein_1828911..1829061_NEGATIVE 1004 140 91 91 42 NC_002967:TDE1843|3end_hypothetical_protein_1872199..1872349_NEGATIVE 1004 140 91 81 32 NC_002967:TDE1837|3end_hypothetical_protein_1869542..1869692_NEGATIVE 1004 140 91 77 28 NC_002967:TDE1832|3end_hypothetical_protein_1865172..1865322_NEGATIVE 1004 140 91 80 31 NC_002967:TDE1828|3end_hypothetical_protein_1860934..1861084_NEGATIVE 1004 140 91 82 33 NC_002967:TDE1812|3end_hypothetical_protein_1847580..1847730_NEGATIVE 1004 140 91 77 28 NC_002967:TDE1796|3end_hypothetical_protein_1834766..1834916_NEGATIVE 1004 140 91 73 24 NC_002967:TDE1787|3end_hypothetical_protein_1826378..1826528_NEGATIVE 1004 140 91 91 42 NC_002967:TDE1780|3end_hypothetical_protein_1822183..1822333_NEGATIVE 1004 140 91 77 28 NC_002967:TDE0268|3end_hypothetical_protein_299219..299369_NEGATIVE 985 140 91 86 37 NC_002967:TDE1806|3end_hypothetical_protein_1843190..1843340_NEGATIVE 977 140 91 91 42 NC_002967:TDE1793|3end_hydrolase,_carbon-nitrogen_family_1829957..1830107_NEGATIVE 976 140 91 80 31 NC_002967:TDE1776|3end_hypothetical_protein_1818414..1818564_NEGATIVE 974 140 91 82 33 NC_002967:TDE1789|3end_hypothetical_protein_1827338..1827488_NEGATIVE 962 140 91 75 26 NC_002967:TDE0097|3end_hypothetical_protein_114801..114951_POSITIVE 955 140 91 74 25 NC_002967:TDE1840|3end_hypothetical_protein_1871324..1871474_NEGATIVE 955 140 91 81 32 NC_002967:TDE1836|3end_hypothetical_protein_1868514..1868664_NEGATIVE 955 140 91 77 28 NC_002967:TDE1821|3end_hypothetical_protein_1854815..1854965_NEGATIVE 955 140 91 77 28 NC_002967:TDE1810|3end_hypothetical_protein_1845924..1846074_NEGATIVE 955 140 91 82 33 NC_002967:TDE1808|3end_hypothetical_protein_1844084..1844234_NEGATIVE