Origin IGS: tttctctccaaccacgccactagcgtgtgagcataacattcgcttaacctgcatttgcggcttgtccgcaatgtcaggttgaagcgggtgttagattttatttttaaaatattttctatcaccttttaccttcataacagataaatatcaaatattaccaatatatgcaacgaaaagatgtatgaaacaggtcttgttttttcatcatattattgtggcaaatattaaaatt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aattttaatatttgccacaataatatgatgaaaaaacaagacctgtttcatacatcttttcgttgcatatattggtaatatttgatatttatctgttatgaaggtaaaaggtgatagaaaatattttaaaaataaaatctaacacccgcttcaacctgacattgcggacaagccgcaaatgcaggttaagcgaatgttatgctcacacgctagtggcgtggttggagagaaa Mask Tandem Repeat Region ================================================ tttctctccaaccacgccactagcgtgtgagcataacattcgcttaacctgcatttgcggcttgtccgcaatgtcaggttgaagcgggtgttagattttatttttaaaatattttctatcaccttttaccttcataacagataaatatcaaatattaccaatatatgcaacgaaaagatgtatgaaacaggtcttgttttttcatcatattattgtggcaaatattaaaatt Find is-nt database================================================ Query_seq: TDE1817:TDE1818|TDE1817:TDE1818:hypothetical protein:hypothetical protein:<-<-:1852690..1852921 232 tttctctccaaccacgccactagcgtgtgagcataacattcgcttaacctgcatttgcggcttgtccgcaatgtcaggttgaagcgggtgttagattttatttttaaaatattttctatcaccttttaccttcataacagataaatatcaaatattaccaatatatgcaacgaaaagatgtatgaaacaggtcttgttttttcatcatattattgtggcaaatattaaaatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TDE1817:TDE1818|TDE1817:TDE1818:hypothetical protein:hypothetical protein:<-<-:1852690..1852921 232 tttctctccaaccacgccactagcgtgtgagcataacattcgcttaacctgcatttgcggcttgtccgcaatgtcaggttgaagcgggtgttagattttatttttaaaatattttctatcaccttttaccttcataacagataaatatcaaatattaccaatatatgcaacgaaaagatgtatgaaacaggtcttgttttttcatcatattattgtggcaaatattaaaatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TDE1817:TDE1818|TDE1817:TDE1818:hypothetical protein:hypothetical protein:<-<-:1852690..1852921 232 tttctctccaaccacgccactagcgtgtgagcataacattcgcttaacctgcatttgcggcttgtccgcaatgtcaggttgaagcgggtgttagattttatttttaaaatattttctatcaccttttaccttcataacagataaatatcaaatattaccaatatatgcaacgaaaagatgtatgaaacaggtcttgttttttcatcatattattgtggcaaatattaaaatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tttctctccaaccacgccactagcgtgtgagcataacattcgcttaacctgcatttgcggcttgtccgcaatgtcaggttgaagcgggtgttagattttatttttaaaatattttctatcaccttttaccttcataacagataaatatcaaatattaccaatatatgcaacgaaaagatgtatgaaacaggtcttgttttttcatcatattattgtggcaaatattaaaatt Predict ORF larger than 30AA ================================================ Protein_Len: 31 Strand: + Start: 49 End: 141 ................................................ M H L R L V R N V R L K R V L D F I F K I F S I T F Y L H N R ........................................................................................... Protein_Len: 46 Strand: + Start: 95 End: 232 .............................................................................................. M L F L K Y F L S P F T F I T D K Y Q I L P I Y A T K R C M K Q V L F F H H I I V A N I K I Protein_Len: 40 Strand: - Start: 3 End: 122 .. R E L W A V L T H A Y C E S L R C K R S T R L T L N F R T N S K I K L I N E I M .............................................................................................................. tttctctccaaccacgccactagcgtgtgagcataacattcgcttaacctgcatttgcggcttgtccgcaatgtcaggttgaagcgggtgttagattttatttttaaaatattttctatcaccttttaccttcataacagataaatatcaaatattaccaatatatgcaacgaaaagatgtatgaaacaggtcttgttttttcatcatattattgtggcaaatattaaaatt 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================================================ tttctctccaaccacgccactagcgtgtgagcataacattcgcttaacctgcatttgcggcttgtccgcaatgtcaggttgaagcgggtgttagattttatttttaaaatattttctatcaccttttaccttcataacagataaatatcaaatattaccaatatatgcaacgaaaagatgtatgaaacaggtcttgttttttcatcatattattgtggcaaatattaaaatt Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 90 HP_score: -12.1 Tail_Score: -3.5268 Start: 37 End: 90 Full_Region: AGCGTGTGAGCATAA CATTCGCTTAACCTGCATTTGCGG CTTGT CCGCAATGTCAGGTTGAAGCGGGTG TTAGATTTTATTTTT ....................................CATTCGCTTAACCTGCATTTGCGGCTTGTCCGCAATGTCAGGTTGAAGCGGGTG.............................................................................................................................................. TransTerm Strand: - Conf: 67 HP_score: -7.7 Tail_Score: -3.40522 Start: 37 End: 90 Full_Region: aaaaataaaatctaa cacccgcttcaacctgacattgcgg acaag ccgcaaatgcaggttaagcgaatg ttatgctcacacgct ....................................cacccgcttcaacctgacattgcggacaagccgcaaatgcaggttaagcgaatg.............................................................................................................................................. TransTerm Strand: - Conf: 62 HP_score: -8.0 Tail_Score: -2.56271 Start: 40 End: 87 Full_Region: aataaaatctaacac ccgcttcaacctgacattgcgg acaag ccgcaaatgcaggttaagcga atgttatgctcacac .......................................ccgcttcaacctgacattgcggacaagccgcaaatgcaggttaagcga................................................................................................................................................. Find igs database================================================ Query_seq: TDE1817:TDE1818|TDE1817:TDE1818:hypothetical protein:hypothetical protein:<-<-:1852690..1852921 232 tttctctccaaccacgccactagcgtgtgagcataacattcgcttaacctgcatttgcggcttgtccgcaatgtcaggttgaagcgggtgttagattttatttttaaaatattttctatcaccttttaccttcataacagataaatatcaaatattaccaatatatgcaacgaaaagatgtatgaaacaggtcttgttttttcatcatattattgtggcaaatattaaaatt Intra-Species Hit: Count: 1 Min: 1 Max: 232 Len: 232 Subject: NC_002967_TDE1817_TDE1818|hypothetical protein:hypothetical protein|NEGATIVE:NEGATIVE|[1852690,1852921]|232 HSP 1 e-value: 1.0E-128 bit: 460.0 Len: 232 Query Start:1 Query End:232 Subject Strand: POSITIVE Subject Start: 1 Subject End: 232 tttctctccaaccacgccactagcgtgtgagcataacattcgcttaacctgcatttgcggcttgtccgcaatgtcaggttgaagcgggtgttagattttatttttaaaatattttctatcaccttttaccttcataacagataaatatcaaatattaccaatatatgcaacgaaaagatgtatgaaacaggtcttgttttttcatcatattattgtggcaaatattaaaatt tttctctccaaccacgccactagcgtgtgagcataacattcgcttaacctgcatttgcggcttgtccgcaatgtcaggttgaagcgggtgttagattttatttttaaaatattttctatcaccttttaccttcataacagataaatatcaaatattaccaatatatgcaacgaaaagatgtatgaaacaggtcttgttttttcatcatattattgtggcaaatattaaaatt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUCUCUCCAACCACGCCACUAGCGUGUGAGCAUAACAUUCGCUUAACCUGCAUUUGCGGCUUGUCCGCAAUGUCAGGUUGAAGCGGGUGUUAGAUUUUAUUUUUAAAAUAUUUUCUAUCACCUUUUACCUUCAUAACAGAUAAAUAUCAAAUAUUACCAAUAUAUGCAACGAAAAGAUGUAUGAAACAGGUCUUGUUUUUUCAUCAUAUUAUUGUGGCAAAUAUUAAAAUU ...............(((((..(((((((....((((((((((((((((((((((.((((.....)))))))).))))))).))))))))))).((((((....))))))...................................................)))))))........((((...(((((((...)))))))..))))........)))))............. (-59.10) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAUUUUAAUAUUUGCCACAAUAAUAUGAUGAAAAAACAAGACCUGUUUCAUACAUCUUUUCGUUGCAUAUAUUGGUAAUAUUUGAUAUUUAUCUGUUAUGAAGGUAAAAGGUGAUAGAAAAUAUUUUAAAAAUAAAAUCUAACACCCGCUUCAACCUGACAUUGCGGACAAGCCGCAAAUGCAGGUUAAGCGAAUGUUAUGCUCACACGCUAGUGGCGUGGUUGGAGAGAAA ..........((((((...((((((.((((((.....((((..(((.....)))))))...(((((........)))))........))))))))))))...)))))).((((.((((...((((.....))))...)))).))))(((((.((((((.((((((((.....)))).))))))))))))))).........(((.(((((.....)))))....)))..... (-60.10) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 1051 90 41 179 130 NC_002967:TDE1836|5end_hypothetical_protein_1869443..1869673_NEGATIVE 1051 90 41 216 167 NC_002967:TDE1831|5end_hypothetical_protein_1865032..1865262_NEGATIVE 1051 90 41 183 134 NC_002967:TDE1827|5end_hydrolase,_carbon-nitrogen_family_1860830..1861060_NEGATIVE 1051 90 41 197 148 NC_002967:TDE1823|5end_hypothetical_protein_1856990..1857220_NEGATIVE 1051 90 41 181 132 NC_002967:TDE1817|5end_hypothetical_protein_1852599..1852829_NEGATIVE 1051 90 41 178 129 NC_002967:TDE1811|5end_hypothetical_protein_1847483..1847713_NEGATIVE 1051 90 41 216 167 NC_002967:TDE1797|5end_hypothetical_protein_1836272..1836502_NEGATIVE 1051 90 41 169 120 NC_002967:TDE1795|5end_funZ_protein,_putative_1834673..1834903_NEGATIVE 1051 90 41 187 138 NC_002967:TDE0267|5end_HAM1_protein_299108..299338_NEGATIVE 1002 90 41 176 127 NC_002967:TDE1839|5end_hypothetical_protein_1871221..1871451_NEGATIVE 1002 90 41 201 152 NC_002967:TDE1832|5end_hypothetical_protein_1865921..1866151_NEGATIVE 1002 90 41 199 150 NC_002967:TDE1820|5end_hypothetical_protein_1854692..1854922_NEGATIVE 995 90 41 200 152 NC_002967:TDE1796|5end_hypothetical_protein_1835515..1835745_NEGATIVE 974 90 41 176 127 NC_002967:TDE1822|5end_hypothetical_protein_1855922..1856152_NEGATIVE 974 90 41 230 181 NC_002967:TDE1790|5end_hypothetical_protein_1828007..1828237_NEGATIVE 970 90 41 230 181 NC_002967:TDE1813|5end_hypothetical_protein_1848249..1848479_NEGATIVE 970 90 41 186 137 NC_002967:TDE1791|5end_hypothetical_protein_1828775..1829005_NEGATIVE 940 90 41 178 127 NC_002967:TDE1803|5end_hypothetical_protein_1839270..1839500_NEGATIVE 859 85 41 231 187 NC_002967:TDE1799|5end_hypothetical_protein_1837264..1837494_NEGATIVE 857 90 41 190 140 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 1051 90 41 90 41 NC_002967:TDE1843|3end_hypothetical_protein_1872199..1872349_NEGATIVE 1051 90 41 80 31 NC_002967:TDE1837|3end_hypothetical_protein_1869542..1869692_NEGATIVE 1051 90 41 76 27 NC_002967:TDE1832|3end_hypothetical_protein_1865172..1865322_NEGATIVE 1051 90 41 79 30 NC_002967:TDE1828|3end_hypothetical_protein_1860934..1861084_NEGATIVE 1051 90 41 81 32 NC_002967:TDE1812|3end_hypothetical_protein_1847580..1847730_NEGATIVE 1051 90 41 76 27 NC_002967:TDE1796|3end_hypothetical_protein_1834766..1834916_NEGATIVE 1051 90 41 72 23 NC_002967:TDE1787|3end_hypothetical_protein_1826378..1826528_NEGATIVE 1051 90 41 90 41 NC_002967:TDE1780|3end_hypothetical_protein_1822183..1822333_NEGATIVE 1051 90 41 76 27 NC_002967:TDE0268|3end_hypothetical_protein_299219..299369_NEGATIVE 1032 90 41 85 36 NC_002967:TDE1806|3end_hypothetical_protein_1843190..1843340_NEGATIVE 1024 90 41 90 41 NC_002967:TDE1793|3end_hydrolase,_carbon-nitrogen_family_1829957..1830107_NEGATIVE 1023 90 41 79 30 NC_002967:TDE1776|3end_hypothetical_protein_1818414..1818564_NEGATIVE 1021 90 41 81 32 NC_002967:TDE1789|3end_hypothetical_protein_1827338..1827488_NEGATIVE 1009 90 41 74 25 NC_002967:TDE0097|3end_hypothetical_protein_114801..114951_POSITIVE 1002 90 41 73 24 NC_002967:TDE1840|3end_hypothetical_protein_1871324..1871474_NEGATIVE 1002 90 41 80 31 NC_002967:TDE1836|3end_hypothetical_protein_1868514..1868664_NEGATIVE 1002 90 41 76 27 NC_002967:TDE1821|3end_hypothetical_protein_1854815..1854965_NEGATIVE 1002 90 41 76 27 NC_002967:TDE1810|3end_hypothetical_protein_1845924..1846074_NEGATIVE 1002 90 41 81 32 NC_002967:TDE1808|3end_hypothetical_protein_1844084..1844234_NEGATIVE 1002 90 41 73 24 NC_002967:TDE1800|3end_hypothetical_protein_1837427..1837577_NEGATIVE