Origin IGS: ttataaggatatattgtcaagtatatataatgaaatcatatacatttagtcatttaataaagtccaaatatttttatacttatttttagtttaatatattaattgtttttcctttctattgaatctaaaaattactttttcagttgtacagtttatttgatagataattttctatatcataggttattttataaattaatataaaattaattctgcacaagcctttcccgcaagcggttagcttgtcaacctaacattcgcttgacctgcatttgcggctcgtccgcaatgtcaggttgaagcgggtgttagatgcc .........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.........1.........2.........3.........4.........5.........6.........7.........8.........9 ggcatctaacacccgcttcaacctgacattgcggacgagccgcaaatgcaggtcaagcgaatgttaggttgacaagctaaccgcttgcgggaaaggcttgtgcagaattaattttatattaatttataaaataacctatgatatagaaaattatctatcaaataaactgtacaactgaaaaagtaatttttagattcaatagaaaggaaaaacaattaatatattaaactaaaaataagtataaaaatatttggactttattaaatgactaaatgtatatgatttcattatatatacttgacaatatatccttataa Mask Tandem Repeat Region ================================================ ttataaggatatattgtcaagtatatataatgaaatcatatacatttagtcatttaataaagtccaaatatttttatacttatttttagtttaatatattaattgtttttcctttctattgaatctaaaaattactttttcagttgtacagtttatttgatagataattttctatatcataggttattttataaattaatataaaattaattctgcacaagcctttcccgcaagcggttagcttgtcaacctaacattcgcttgacctgcatttgcggctcgtccgcaatgtcaggttgaagcgggtgttagatgcc Find is-nt database================================================ Query_seq: TDE1807:TDE1808|TDE1807:TDE1808:hypothetical protein:hypothetical protein:<-<-:1843857..1844173 317 ttataaggatatattgtcaagtatatataatgaaatcatatacatttagtcatttaataaagtccaaatatttttatacttatttttagtttaatatattaattgtttttcctttctattgaatctaaaaattactttttcagttgtacagtttatttgatagataattttctatatcataggttattttataaattaatataaaattaattctgcacaagcctttcccgcaagcggttagcttgtcaacctaacattcgcttgacctgcatttgcggctcgtccgcaatgtcaggttgaagcgggtgttagatgcc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TDE1807:TDE1808|TDE1807:TDE1808:hypothetical protein:hypothetical protein:<-<-:1843857..1844173 317 ttataaggatatattgtcaagtatatataatgaaatcatatacatttagtcatttaataaagtccaaatatttttatacttatttttagtttaatatattaattgtttttcctttctattgaatctaaaaattactttttcagttgtacagtttatttgatagataattttctatatcataggttattttataaattaatataaaattaattctgcacaagcctttcccgcaagcggttagcttgtcaacctaacattcgcttgacctgcatttgcggctcgtccgcaatgtcaggttgaagcgggtgttagatgcc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TDE1807:TDE1808|TDE1807:TDE1808:hypothetical protein:hypothetical protein:<-<-:1843857..1844173 317 ttataaggatatattgtcaagtatatataatgaaatcatatacatttagtcatttaataaagtccaaatatttttatacttatttttagtttaatatattaattgtttttcctttctattgaatctaaaaattactttttcagttgtacagtttatttgatagataattttctatatcataggttattttataaattaatataaaattaattctgcacaagcctttcccgcaagcggttagcttgtcaacctaacattcgcttgacctgcatttgcggctcgtccgcaatgtcaggttgaagcgggtgttagatgcc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ttataaggatatattgtcaagtatatataatgaaatcatatacatttagtcatttaataaagtccaaatatttttatacttatttttagtttaatatattaattgtttttcctttctattgaatctaaaaattactttttcagttgtacagtttatttgatagataattttctatatcataggttattttataaattaatataaaattaattctgcacaagcctttcccgcaagcggttagcttgtcaacctaacattcgcttgacctgcatttgcggctcgtccgcaatgtcaggttgaagcgggtgttagatgcc Predict ORF larger than 30AA ================================================ Protein_Len: 33 Strand: + Start: 103 End: 201 ...................................................................................................... M F F L S I E S K N Y F F S C T V Y L I D N F L Y H R L F Y K L I .................................................................................................................... ttataaggatatattgtcaagtatatataatgaaatcatatacatttagtcatttaataaagtccaaatatttttatacttatttttagtttaatatattaattgtttttcctttctattgaatctaaaaattactttttcagttgtacagtttatttgatagataattttctatatcataggttattttataaattaatataaaattaattctgcacaagcctttcccgcaagcggttagcttgtcaacctaacattcgcttgacctgcatttgcggctcgtccgcaatgtcaggttgaagcgggtgttagatgcc 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================================================ ttataaggatatattgtcaagtatatataatgaaatcatatacatttagtcatttaataaagtccaaatatttttatacttatttttagtttaatatattaattgtttttcctttctattgaatctaaaaattactttttcagttgtacagtttatttgatagataattttctatatcataggttattttataaattaatataaaattaattctgcacaagcctttcccgcaagcggttagcttgtcaacctaacattcgcttgacctgcatttgcggctcgtccgcaatgtcaggttgaagcgggtgttagatgcc Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 43 HP_score: -2.3 Tail_Score: -3.44146 Start: 187 End: 206 Full_Region: CTATATCATAGGTTA TTTTATA AATTAA TATAAAA TTAATTCTGCACAAG ..........................................................................................................................................................................................TTTTATAAATTAATATAAAA............................................................................................................... TransTerm Strand: - Conf: 45 HP_score: -3.3 Tail_Score: -3.17194 Start: 255 End: 308 Full_Region: ggcatctaa cacccgcttcaacctgacattgcgg acgag ccgcaaatgcaggtcaagcgaatg ttaggttgacaagct ..............................................................................................................................................................................................................................................................cacccgcttcaacctgacattgcggacgagccgcaaatgcaggtcaagcgaatg......... Find igs database================================================ Query_seq: TDE1807:TDE1808|TDE1807:TDE1808:hypothetical protein:hypothetical protein:<-<-:1843857..1844173 317 ttataaggatatattgtcaagtatatataatgaaatcatatacatttagtcatttaataaagtccaaatatttttatacttatttttagtttaatatattaattgtttttcctttctattgaatctaaaaattactttttcagttgtacagtttatttgatagataattttctatatcataggttattttataaattaatataaaattaattctgcacaagcctttcccgcaagcggttagcttgtcaacctaacattcgcttgacctgcatttgcggctcgtccgcaatgtcaggttgaagcgggtgttagatgcc Intra-Species Hit: Count: 1 Min: 1 Max: 317 Len: 317 Subject: NC_002967_TDE1807_TDE1808|hypothetical protein:hypothetical protein|NEGATIVE:NEGATIVE|[1843857,1844173]|317 HSP 1 e-value: 1.0E-110 bit: 400.0 Len: 202 Query Start:116 Query End:317 Subject Strand: POSITIVE Subject Start: 116 Subject End: 317 ...................................................................................................................ctattgaatctaaaaattactttttcagttgtacagtttatttgatagataattttctatatcataggttattttataaattaatataaaattaattctgcacaagcctttcccgcaagcggttagcttgtcaacctaacattcgcttgacctgcatttgcggctcgtccgcaatgtcaggttgaagcgggtgttagatgcc ...................................................................................................................ctattgaatctaaaaattactttttcagttgtacagtttatttgatagataattttctatatcataggttattttataaattaatataaaattaattctgcacaagcctttcccgcaagcggttagcttgtcaacctaacattcgcttgacctgcatttgcggctcgtccgcaatgtcaggttgaagcgggtgttagatgcc HSP 2 e-value: 1.0E-20 bit: 101.0 Len: 51 Query Start:1 Query End:51 Subject Strand: POSITIVE Subject Start: 1 Subject End: 51 ttataaggatatattgtcaagtatatataatgaaatcatatacatttagtc.......................................................................................................................................................................................................................................................................... ttataaggatatattgtcaagtatatataatgaaatcatatacatttagtc.......................................................................................................................................................................................................................................................................... Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUAUAAGGAUAUAUUGUCAAGUAUAUAUAAUGAAAUCAUAUACAUUUAGUCAUUUAAUAAAGUCCAAAUAUUUUUAUACUUAUUUUUAGUUUAAUAUAUUAAUUGUUUUUCCUUUCUAUUGAAUCUAAAAAUUACUUUUUCAGUUGUACAGUUUAUUUGAUAGAUAAUUUUCUAUAUCAUAGGUUAUUUUAUAAAUUAAUAUAAAAUUAAUUCUGCACAAGCCUUUCCCGCAAGCGGUUAGCUUGUCAACCUAACAUUCGCUUGACCUGCAUUUGCGGCUCGUCCGCAAUGUCAGGUUGAAGCGGGUGUUAGAUGCC .(((((((((((.(((....((((((...........))))))..((((....)))).......)))))))))))))).......(((((((..((((((((((..........(((((..((..((((...(((..........)))...))))))..))))).(((..(((((...)))))..))).....)))))))))))))))))...((.((((((.(..(((....).))..)))))))))..(((((((((((((((((((((((.((((.....)))))))).)))))).)))))))))))))..... (-72.80) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GGCAUCUAACACCCGCUUCAACCUGACAUUGCGGACGAGCCGCAAAUGCAGGUCAAGCGAAUGUUAGGUUGACAAGCUAACCGCUUGCGGGAAAGGCUUGUGCAGAAUUAAUUUUAUAUUAAUUUAUAAAAUAACCUAUGAUAUAGAAAAUUAUCUAUCAAAUAAACUGUACAACUGAAAAAGUAAUUUUUAGAUUCAAUAGAAAGGAAAAACAAUUAAUAUAUUAAACUAAAAAUAAGUAUAAAAAUAUUUGGACUUUAUUAAAUGACUAAAUGUAUAUGAUUUCAUUAUAUAUACUUGACAAUAUAUCCUUAUAA ...((((((((..(((((..(((((.((((((((.....)))).))))))))).)))))..))))))))....(((((..(((....)))....)))))((((((.....((((((((......))))))))....(((...(((((......)))))...)))..))))))..(((((((.....)))))))..........(((((.......((((....))))........((((((((...((((((((.(..........).))))))))..(((....)))....))))))))........))))).... (-70.80) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 1055 310 261 201 152 NC_002967:TDE1820|5end_hypothetical_protein_1854692..1854922_NEGATIVE 1032 310 261 181 132 NC_002967:TDE1836|5end_hypothetical_protein_1869443..1869673_NEGATIVE 1032 310 261 185 136 NC_002967:TDE1827|5end_hydrolase,_carbon-nitrogen_family_1860830..1861060_NEGATIVE 1032 310 261 180 131 NC_002967:TDE1811|5end_hypothetical_protein_1847483..1847713_NEGATIVE 1032 310 261 189 140 NC_002967:TDE0267|5end_HAM1_protein_299108..299338_NEGATIVE 979 310 261 178 129 NC_002967:TDE1839|5end_hypothetical_protein_1871221..1871451_NEGATIVE 979 310 261 203 154 NC_002967:TDE1832|5end_hypothetical_protein_1865921..1866151_NEGATIVE 976 310 261 202 154 NC_002967:TDE1796|5end_hypothetical_protein_1835515..1835745_NEGATIVE 956 310 261 218 169 NC_002967:TDE1831|5end_hypothetical_protein_1865032..1865262_NEGATIVE 956 310 261 199 150 NC_002967:TDE1823|5end_hypothetical_protein_1856990..1857220_NEGATIVE 956 310 261 183 134 NC_002967:TDE1817|5end_hypothetical_protein_1852599..1852829_NEGATIVE 956 310 261 218 169 NC_002967:TDE1797|5end_hypothetical_protein_1836272..1836502_NEGATIVE 956 310 261 171 122 NC_002967:TDE1795|5end_funZ_protein,_putative_1834673..1834903_NEGATIVE 946 309 261 231 183 NC_002967:TDE1790|5end_hypothetical_protein_1828007..1828237_NEGATIVE 934 300 251 228 179 NC_002967:TDE1799|5end_hypothetical_protein_1837264..1837494_NEGATIVE 879 310 261 178 129 NC_002967:TDE1822|5end_hypothetical_protein_1855922..1856152_NEGATIVE 875 310 261 188 139 NC_002967:TDE1791|5end_hypothetical_protein_1828775..1829005_NEGATIVE 866 309 261 231 183 NC_002967:TDE1813|5end_hypothetical_protein_1848249..1848479_NEGATIVE 848 310 261 180 129 NC_002967:TDE1803|5end_hypothetical_protein_1839270..1839500_NEGATIVE 762 310 261 192 142 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 1055 310 261 78 29 NC_002967:TDE1821|3end_hypothetical_protein_1854815..1854965_NEGATIVE 1032 310 261 82 33 NC_002967:TDE1837|3end_hypothetical_protein_1869542..1869692_NEGATIVE 1032 310 261 81 32 NC_002967:TDE1828|3end_hypothetical_protein_1860934..1861084_NEGATIVE 1032 310 261 83 34 NC_002967:TDE1812|3end_hypothetical_protein_1847580..1847730_NEGATIVE 1032 310 261 74 25 NC_002967:TDE1787|3end_hypothetical_protein_1826378..1826528_NEGATIVE 1032 310 261 92 43 NC_002967:TDE1780|3end_hypothetical_protein_1822183..1822333_NEGATIVE 1032 310 261 78 29 NC_002967:TDE0268|3end_hypothetical_protein_299219..299369_NEGATIVE 1013 310 261 87 38 NC_002967:TDE1806|3end_hypothetical_protein_1843190..1843340_NEGATIVE 1004 310 261 81 32 NC_002967:TDE1776|3end_hypothetical_protein_1818414..1818564_NEGATIVE 981 310 261 109 60 NC_002967:TDE1815|3end_hypothetical_protein_1849458..1849608_NEGATIVE 979 310 261 75 26 NC_002967:TDE1840|3end_hypothetical_protein_1871324..1871474_NEGATIVE 979 310 261 82 33 NC_002967:TDE1836|3end_hypothetical_protein_1868514..1868664_NEGATIVE 979 310 261 78 29 NC_002967:TDE1810|3end_hypothetical_protein_1845924..1846074_NEGATIVE 979 310 261 75 26 NC_002967:TDE1800|3end_hypothetical_protein_1837427..1837577_NEGATIVE 976 310 261 62 14 NC_002967:TDE1831|3end_hypothetical_protein_1864415..1864565_NEGATIVE 976 310 261 62 14 NC_002967:TDE1797|3end_hypothetical_protein_1835655..1835805_NEGATIVE 966 310 261 87 38 NC_002967:TDE1811|3end_hypothetical_protein_1846773..1846923_NEGATIVE 956 310 261 92 43 NC_002967:TDE1843|3end_hypothetical_protein_1872199..1872349_NEGATIVE 956 310 261 78 29 NC_002967:TDE1832|3end_hypothetical_protein_1865172..1865322_NEGATIVE 956 310 261 78 29 NC_002967:TDE1796|3end_hypothetical_protein_1834766..1834916_NEGATIVE