Origin IGS: ttttccttctaaaaaagcaggccagaggcctgtcgccataacattcgcttaacctgcatttgtggcttgtccgcaatgtcaggttgaagcgggtgttagacattattttccattaatcatttcccaaagttaata .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tattaactttgggaaatgattaatggaaaataatgtctaacacccgcttcaacctgacattgcggacaagccacaaatgcaggttaagcgaatgttatggcgacaggcctctggcctgcttttttagaaggaaaa Mask Tandem Repeat Region ================================================ ttttccttctaaaaaagcaggccagaggcctgtcgccataacattcgcttaacctgcatttgtggcttgtccgcaatgtcaggttgaagcgggtgttagacattattttccattaatcatttcccaaagttaata Find is-nt database================================================ Query_seq: TDE1791:TDE1792|TDE1791:TDE1792:hypothetical protein:hypothetical protein:<-<-:1828866..1829000 135 ttttccttctaaaaaagcaggccagaggcctgtcgccataacattcgcttaacctgcatttgtggcttgtccgcaatgtcaggttgaagcgggtgttagacattattttccattaatcatttcccaaagttaata Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TDE1791:TDE1792|TDE1791:TDE1792:hypothetical protein:hypothetical protein:<-<-:1828866..1829000 135 ttttccttctaaaaaagcaggccagaggcctgtcgccataacattcgcttaacctgcatttgtggcttgtccgcaatgtcaggttgaagcgggtgttagacattattttccattaatcatttcccaaagttaata Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TDE1791:TDE1792|TDE1791:TDE1792:hypothetical protein:hypothetical protein:<-<-:1828866..1829000 135 ttttccttctaaaaaagcaggccagaggcctgtcgccataacattcgcttaacctgcatttgtggcttgtccgcaatgtcaggttgaagcgggtgttagacattattttccattaatcatttcccaaagttaata Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ttttccttctaaaaaagcaggccagaggcctgtcgccataacattcgcttaacctgcatttgtggcttgtccgcaatgtcaggttgaagcgggtgttagacattattttccattaatcatttcccaaagttaata Predict ORF larger than 30AA ================================================ Protein_Len: 35 Strand: - Start: 2 End: 106 . K R R F F C A L P R D G Y C E S L R C K H S T R L T L N F R T N S M M ............................. ttttccttctaaaaaagcaggccagaggcctgtcgccataacattcgcttaacctgcatttgtggcttgtccgcaatgtcaggttgaagcgggtgttagacattattttccattaatcatttcccaaagttaata 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================================================ ttttccttctaaaaaagcaggccagaggcctgtcgccataacattcgcttaacctgcatttgtggcttgtccgcaatgtcaggttgaagcgggtgttagacattattttccattaatcatttcccaaagttaata Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 88 HP_score: -7.9 Tail_Score: -5.00616 Start: 17 End: 33 Full_Region: gcgaatgttatggcg acaggcc tct ggcctgc ttttttagaaggaaa ................acaggcctctggcctgc...................................................................................................... TransTerm Strand: - Conf: 82 HP_score: -11.4 Tail_Score: -3.60048 Start: 18 End: 32 Full_Region: cgaatgttatggcga caggcc tct ggcctg cttttttagaaggaa .................caggcctctggcctg....................................................................................................... TransTerm Strand: + Conf: 50 HP_score: -5.3 Tail_Score: -3.08349 Start: 44 End: 93 Full_Region: CCTGTCGCCATAACA TTCGCTTAACCTGCATTTGTGG CTTGT CCGCAATGTCAGGTTGAAGCGGG TGTTAGACATTATTT ...........................................TTCGCTTAACCTGCATTTGTGGCTTGTCCGCAATGTCAGGTTGAAGCGGG.......................................... TransTerm Strand: - Conf: 39 HP_score: -2.2 Tail_Score: -2.52623 Start: 45 End: 92 Full_Region: aataatgtctaacac ccgcttcaacctgacattgcgg acaag ccacaaatgcaggttaagcga atgttatggcgacag ............................................ccgcttcaacctgacattgcggacaagccacaaatgcaggttaagcga........................................... Find igs database================================================ Query_seq: TDE1791:TDE1792|TDE1791:TDE1792:hypothetical protein:hypothetical protein:<-<-:1828866..1829000 135 ttttccttctaaaaaagcaggccagaggcctgtcgccataacattcgcttaacctgcatttgtggcttgtccgcaatgtcaggttgaagcgggtgttagacattattttccattaatcatttcccaaagttaata Intra-Species Hit: Count: 1 Min: 1 Max: 135 Len: 135 Subject: NC_002967_TDE1791_TDE1792|hypothetical protein:hypothetical protein|NEGATIVE:NEGATIVE|[1828866,1829000]|135 HSP 1 e-value: 4.0E-71 bit: 268.0 Len: 135 Query Start:1 Query End:135 Subject Strand: POSITIVE Subject Start: 1 Subject End: 135 ttttccttctaaaaaagcaggccagaggcctgtcgccataacattcgcttaacctgcatttgtggcttgtccgcaatgtcaggttgaagcgggtgttagacattattttccattaatcatttcccaaagttaata ttttccttctaaaaaagcaggccagaggcctgtcgccataacattcgcttaacctgcatttgtggcttgtccgcaatgtcaggttgaagcgggtgttagacattattttccattaatcatttcccaaagttaata Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUUCCUUCUAAAAAAGCAGGCCAGAGGCCUGUCGCCAUAACAUUCGCUUAACCUGCAUUUGUGGCUUGUCCGCAAUGUCAGGUUGAAGCGGGUGUUAGACAUUAUUUUCCAUUAAUCAUUUCCCAAAGUUAAUA ................(((((((...))))))).....((((((((((((((((((((((.((((.....)))))))).))))))).)))))))))))..................................... (-42.50) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAUUAACUUUGGGAAAUGAUUAAUGGAAAAUAAUGUCUAACACCCGCUUCAACCUGACAUUGCGGACAAGCCACAAAUGCAGGUUAAGCGAAUGUUAUGGCGACAGGCCUCUGGCCUGCUUUUUUAGAAGGAAAA ......((((..((((..................((((((((..(((((.((((((.(((((.((.....)).).)))))))))))))))..))))).)))..((((((...))))))..))))..))))..... (-40.80) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 1017 70 21 161 112 NC_002967:TDE1791|5end_hypothetical_protein_1828775..1829005_NEGATIVE 986 100 51 184 135 NC_002967:TDE1836|5end_hypothetical_protein_1869443..1869673_NEGATIVE 986 100 51 221 172 NC_002967:TDE1831|5end_hypothetical_protein_1865032..1865262_NEGATIVE 986 100 51 202 153 NC_002967:TDE1823|5end_hypothetical_protein_1856990..1857220_NEGATIVE 986 100 51 186 137 NC_002967:TDE1817|5end_hypothetical_protein_1852599..1852829_NEGATIVE 986 100 51 174 125 NC_002967:TDE1795|5end_funZ_protein,_putative_1834673..1834903_NEGATIVE 977 100 52 181 133 NC_002967:TDE1839|5end_hypothetical_protein_1871221..1871451_NEGATIVE 977 100 52 206 158 NC_002967:TDE1832|5end_hypothetical_protein_1865921..1866151_NEGATIVE 977 100 52 204 156 NC_002967:TDE1820|5end_hypothetical_protein_1854692..1854922_NEGATIVE 970 99 51 187 139 NC_002967:TDE1827|5end_hydrolase,_carbon-nitrogen_family_1860830..1861060_NEGATIVE 970 99 51 182 134 NC_002967:TDE1811|5end_hypothetical_protein_1847483..1847713_NEGATIVE 970 99 51 220 172 NC_002967:TDE1797|5end_hypothetical_protein_1836272..1836502_NEGATIVE 970 99 51 191 143 NC_002967:TDE0267|5end_HAM1_protein_299108..299338_NEGATIVE 964 90 41 225 176 NC_002967:TDE1813|5end_hypothetical_protein_1848249..1848479_NEGATIVE 930 100 51 205 157 NC_002967:TDE1796|5end_hypothetical_protein_1835515..1835745_NEGATIVE 909 100 51 181 132 NC_002967:TDE1822|5end_hypothetical_protein_1855922..1856152_NEGATIVE 908 90 41 231 182 NC_002967:TDE1799|5end_hypothetical_protein_1837264..1837494_NEGATIVE 883 90 41 225 176 NC_002967:TDE1790|5end_hypothetical_protein_1828007..1828237_NEGATIVE 830 98 51 181 132 NC_002967:TDE1803|5end_hypothetical_protein_1839270..1839500_NEGATIVE 776 99 51 194 145 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 990 100 51 55 6 NC_002967:TDE1814|3end_hypothetical_protein_1848429..1848579_NEGATIVE 986 100 51 85 36 NC_002967:TDE1837|3end_hypothetical_protein_1869542..1869692_NEGATIVE 986 100 51 81 32 NC_002967:TDE1832|3end_hypothetical_protein_1865172..1865322_NEGATIVE 986 100 51 81 32 NC_002967:TDE1796|3end_hypothetical_protein_1834766..1834916_NEGATIVE 986 100 51 77 28 NC_002967:TDE1787|3end_hypothetical_protein_1826378..1826528_NEGATIVE 977 100 52 78 30 NC_002967:TDE1840|3end_hypothetical_protein_1871324..1871474_NEGATIVE 977 100 52 85 37 NC_002967:TDE1836|3end_hypothetical_protein_1868514..1868664_NEGATIVE 977 100 52 81 33 NC_002967:TDE1821|3end_hypothetical_protein_1854815..1854965_NEGATIVE 977 100 52 86 38 NC_002967:TDE1808|3end_hypothetical_protein_1844084..1844234_NEGATIVE 977 100 52 78 30 NC_002967:TDE1800|3end_hypothetical_protein_1837427..1837577_NEGATIVE 970 99 51 94 46 NC_002967:TDE1843|3end_hypothetical_protein_1872199..1872349_NEGATIVE 970 99 51 83 35 NC_002967:TDE1828|3end_hypothetical_protein_1860934..1861084_NEGATIVE 970 99 51 85 37 NC_002967:TDE1812|3end_hypothetical_protein_1847580..1847730_NEGATIVE 970 99 51 94 46 NC_002967:TDE1780|3end_hypothetical_protein_1822183..1822333_NEGATIVE 970 99 51 80 32 NC_002967:TDE0268|3end_hypothetical_protein_299219..299369_NEGATIVE 967 100 51 90 41 NC_002967:TDE1806|3end_hypothetical_protein_1843190..1843340_NEGATIVE 961 99 52 80 33 NC_002967:TDE1810|3end_hypothetical_protein_1845924..1846074_NEGATIVE 960 90 41 76 27 NC_002967:TDE1789|3end_hypothetical_protein_1827338..1827488_NEGATIVE 943 99 51 94 46 NC_002967:TDE1793|3end_hydrolase,_carbon-nitrogen_family_1829957..1830107_NEGATIVE 942 99 51 83 35 NC_002967:TDE1776|3end_hypothetical_protein_1818414..1818564_NEGATIVE