Origin IGS: aaacataaatcctataataaatatattttttttcattttctttcttgttgcccattgggcaatccgtctaacattcgcttaacctgcatttgcggcttgtccgcaatgtcaggttgaagcgggtgttagatgctcattc .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 gaatgagcatctaacacccgcttcaacctgacattgcggacaagccgcaaatgcaggttaagcgaatgttagacggattgcccaatgggcaacaagaaagaaaatgaaaaaaaatatatttattataggatttatgttt Mask Tandem Repeat Region ================================================ aaacataaatcctataataaatatattttttttcattttctttcttgttgcccattgggcaatccgtctaacattcgcttaacctgcatttgcggcttgtccgcaatgtcaggttgaagcgggtgttagatgctcattc Find is-nt database================================================ Query_seq: TDE1831:TDE1832|TDE1831:TDE1832:hypothetical protein:hypothetical protein:<-<-:1865123..1865261 139 aaacataaatcctataataaatatattttttttcattttctttcttgttgcccattgggcaatccgtctaacattcgcttaacctgcatttgcggcttgtccgcaatgtcaggttgaagcgggtgttagatgctcattc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TDE1831:TDE1832|TDE1831:TDE1832:hypothetical protein:hypothetical protein:<-<-:1865123..1865261 139 aaacataaatcctataataaatatattttttttcattttctttcttgttgcccattgggcaatccgtctaacattcgcttaacctgcatttgcggcttgtccgcaatgtcaggttgaagcgggtgttagatgctcattc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TDE1831:TDE1832|TDE1831:TDE1832:hypothetical protein:hypothetical protein:<-<-:1865123..1865261 139 aaacataaatcctataataaatatattttttttcattttctttcttgttgcccattgggcaatccgtctaacattcgcttaacctgcatttgcggcttgtccgcaatgtcaggttgaagcgggtgttagatgctcattc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aaacataaatcctataataaatatattttttttcattttctttcttgttgcccattgggcaatccgtctaacattcgcttaacctgcatttgcggcttgtccgcaatgtcaggttgaagcgggtgttagatgctcattc Predict ORF larger than 30AA ================================================ Protein_Len: 30 Strand: + Start: 25 End: 114 ........................ M F F H F L S C C P L G N P S N I R L T C I C G L S A M S G ......................... aaacataaatcctataataaatatattttttttcattttctttcttgttgcccattgggcaatccgtctaacattcgcttaacctgcatttgcggcttgtccgcaatgtcaggttgaagcgggtgttagatgctcattc 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================================================ aaacataaatcctataataaatatattttttttcattttctttcttgttgcccattgggcaatccgtctaacattcgcttaacctgcatttgcggcttgtccgcaatgtcaggttgaagcgggtgttagatgctcattc Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 71 HP_score: -8.9 Tail_Score: -3.1154 Start: 74 End: 123 Full_Region: GCAATCCGTCTAACA TTCGCTTAACCTGCATTTGCGG CTTGT CCGCAATGTCAGGTTGAAGCGGG TGTTAGATGCTCATT .........................................................................TTCGCTTAACCTGCATTTGCGGCTTGTCCGCAATGTCAGGTTGAAGCGGG................ Find igs database================================================ Query_seq: TDE1831:TDE1832|TDE1831:TDE1832:hypothetical protein:hypothetical protein:<-<-:1865123..1865261 139 aaacataaatcctataataaatatattttttttcattttctttcttgttgcccattgggcaatccgtctaacattcgcttaacctgcatttgcggcttgtccgcaatgtcaggttgaagcgggtgttagatgctcattc Intra-Species Hit: Count: 2 Min: 1 Max: 139 Len: 139 Subject: NC_002967_TDE1831_TDE1832|hypothetical protein:hypothetical protein|NEGATIVE:NEGATIVE|[1865123,1865261]|139 HSP 1 e-value: 4.0E-59 bit: 228.0 Len: 139 Query Start:1 Query End:139 Subject Strand: POSITIVE Subject Start: 1 Subject End: 139 aaacataaatcctataataaatatannnnnnnncattttctttcttgttgcccattgggcaatccgtctaacattcgcttaacctgcatttgcggcttgtccgcaatgtcaggttgaagcgggtgttagatgctcattc aaacataaatcctataataaatatattttttttcattttctttcttgttgcccattgggcaatccgtctaacattcgcttaacctgcatttgcggcttgtccgcaatgtcaggttgaagcgggtgttagatgctcattc Subject: NC_002967_TDE1797_TDE1798|hypothetical protein:hypothetical protein|NEGATIVE:NEGATIVE|[1836363,1836550]|188 HSP 1 e-value: 4.0E-53 bit: 208.0 Len: 129 Query Start:1 Query End:129 Subject Strand: POSITIVE Subject Start: 1 Subject End: 129 aaacataaatcctataataaatatannnnnnnncattttctttcttgttgcccattgggcaatccgtctaacattcgcttaacctgcatttgcggcttgtccgcaatgtcaggttgaagcgggtgttag.......... aaacataaatcctataataaatatattttttttcattttctttcttgttgcccattgggcaatccgtctaacattcgcttaacctgcatttgcggcttgtccgcaatgtcaggttgaagcgggtgttag.......... Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAACAUAAAUCCUAUAAUAAAUAUAUUUUUUUUCAUUUUCUUUCUUGUUGCCCAUUGGGCAAUCCGUCUAACAUUCGCUUAACCUGCAUUUGCGGCUUGUCCGCAAUGUCAGGUUGAAGCGGGUGUUAGAUGCUCAUUC ..............................................(((((((...))))))).((((((((((((((((((((((((((.((((.....)))))))).))))))).)))))))))))))))....... (-49.30) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GAAUGAGCAUCUAACACCCGCUUCAACCUGACAUUGCGGACAAGCCGCAAAUGCAGGUUAAGCGAAUGUUAGACGGAUUGCCCAAUGGGCAACAAGAAAGAAAAUGAAAAAAAAUAUAUUUAUUAUAGGAUUUAUGUUU .((((((..(((((((..(((((.((((((.((((((((.....)))).)))))))))))))))..)))))))....((((((...))))))..........................))))))............... (-42.20) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 1015 130 81 184 135 NC_002967:TDE1836|5end_hypothetical_protein_1869443..1869673_NEGATIVE 1015 130 81 221 172 NC_002967:TDE1831|5end_hypothetical_protein_1865032..1865262_NEGATIVE 1015 130 81 202 153 NC_002967:TDE1823|5end_hypothetical_protein_1856990..1857220_NEGATIVE 1015 130 81 186 137 NC_002967:TDE1817|5end_hypothetical_protein_1852599..1852829_NEGATIVE 1015 130 81 174 125 NC_002967:TDE1795|5end_funZ_protein,_putative_1834673..1834903_NEGATIVE 1006 130 82 181 133 NC_002967:TDE1839|5end_hypothetical_protein_1871221..1871451_NEGATIVE 1006 130 82 204 156 NC_002967:TDE1820|5end_hypothetical_protein_1854692..1854922_NEGATIVE 999 129 81 187 139 NC_002967:TDE1827|5end_hydrolase,_carbon-nitrogen_family_1860830..1861060_NEGATIVE 999 129 81 182 134 NC_002967:TDE1811|5end_hypothetical_protein_1847483..1847713_NEGATIVE 999 129 81 220 172 NC_002967:TDE1797|5end_hypothetical_protein_1836272..1836502_NEGATIVE 999 129 81 191 143 NC_002967:TDE0267|5end_HAM1_protein_299108..299338_NEGATIVE 959 130 81 205 157 NC_002967:TDE1796|5end_hypothetical_protein_1835515..1835745_NEGATIVE 938 130 81 181 132 NC_002967:TDE1822|5end_hypothetical_protein_1855922..1856152_NEGATIVE 937 120 71 231 182 NC_002967:TDE1799|5end_hypothetical_protein_1837264..1837494_NEGATIVE 934 130 81 191 142 NC_002967:TDE1791|5end_hypothetical_protein_1828775..1829005_NEGATIVE 912 120 71 225 176 NC_002967:TDE1790|5end_hypothetical_protein_1828007..1828237_NEGATIVE 908 120 71 225 176 NC_002967:TDE1813|5end_hypothetical_protein_1848249..1848479_NEGATIVE 859 128 81 181 132 NC_002967:TDE1803|5end_hypothetical_protein_1839270..1839500_NEGATIVE 805 129 81 194 145 NC_002967:TDE0262|5end_hypothetical_protein_296300..296530_NEGATIVE 760 104 62 231 185 NC_002967:TDE1792|5end_hypothetical_protein_1829795..1830025_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 1015 130 81 85 36 NC_002967:TDE1837|3end_hypothetical_protein_1869542..1869692_NEGATIVE 1015 130 81 81 32 NC_002967:TDE1796|3end_hypothetical_protein_1834766..1834916_NEGATIVE 1015 130 81 77 28 NC_002967:TDE1787|3end_hypothetical_protein_1826378..1826528_NEGATIVE 1006 130 82 78 30 NC_002967:TDE1840|3end_hypothetical_protein_1871324..1871474_NEGATIVE 1006 130 82 85 37 NC_002967:TDE1836|3end_hypothetical_protein_1868514..1868664_NEGATIVE 1006 130 82 81 33 NC_002967:TDE1821|3end_hypothetical_protein_1854815..1854965_NEGATIVE 1006 130 82 86 38 NC_002967:TDE1808|3end_hypothetical_protein_1844084..1844234_NEGATIVE 1006 130 82 78 30 NC_002967:TDE1800|3end_hypothetical_protein_1837427..1837577_NEGATIVE 999 129 81 94 46 NC_002967:TDE1843|3end_hypothetical_protein_1872199..1872349_NEGATIVE 999 129 81 83 35 NC_002967:TDE1828|3end_hypothetical_protein_1860934..1861084_NEGATIVE 999 129 81 85 37 NC_002967:TDE1812|3end_hypothetical_protein_1847580..1847730_NEGATIVE 999 129 81 94 46 NC_002967:TDE1780|3end_hypothetical_protein_1822183..1822333_NEGATIVE 999 129 81 80 32 NC_002967:TDE0268|3end_hypothetical_protein_299219..299369_NEGATIVE 996 130 81 90 41 NC_002967:TDE1806|3end_hypothetical_protein_1843190..1843340_NEGATIVE 990 129 82 80 33 NC_002967:TDE1810|3end_hypothetical_protein_1845924..1846074_NEGATIVE 989 120 71 76 27 NC_002967:TDE1789|3end_hypothetical_protein_1827338..1827488_NEGATIVE 972 129 81 94 46 NC_002967:TDE1793|3end_hydrolase,_carbon-nitrogen_family_1829957..1830107_NEGATIVE 971 129 81 83 35 NC_002967:TDE1776|3end_hypothetical_protein_1818414..1818564_NEGATIVE 967 120 71 69 20 NC_002967:TDE0097|3end_hypothetical_protein_114801..114951_POSITIVE 959 130 81 65 17 NC_002967:TDE1831|3end_hypothetical_protein_1864415..1864565_NEGATIVE