Origin IGS: ttagttttccccctatatttctaaaaatagcggctcagtgagccgaccatctaacatccgcttgacctgcatttgcggctcgtccgcaatgtcaggttgaagcgggtgttagatgatttttt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aaaaaatcatctaacacccgcttcaacctgacattgcggacgagccgcaaatgcaggtcaagcggatgttagatggtcggctcactgagccgctatttttagaaatatagggggaaaactaa Mask Tandem Repeat Region ================================================ ttagttttccccctatatttctaaaaatagcggctcagtgagccgaccatctaacatccgcttgacctgcatttgcggctcgtccgcaatgtcaggttgaagcgggtgttagatgatttttt Find is-nt database================================================ Query_seq: TDE1820:TDE1821|TDE1820:TDE1821:hypothetical protein:hypothetical protein:<-<-:1854783..1854904 122 ttagttttccccctatatttctaaaaatagcggctcagtgagccgaccatctaacatccgcttgacctgcatttgcggctcgtccgcaatgtcaggttgaagcgggtgttagatgatttttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TDE1820:TDE1821|TDE1820:TDE1821:hypothetical protein:hypothetical protein:<-<-:1854783..1854904 122 ttagttttccccctatatttctaaaaatagcggctcagtgagccgaccatctaacatccgcttgacctgcatttgcggctcgtccgcaatgtcaggttgaagcgggtgttagatgatttttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TDE1820:TDE1821|TDE1820:TDE1821:hypothetical protein:hypothetical protein:<-<-:1854783..1854904 122 ttagttttccccctatatttctaaaaatagcggctcagtgagccgaccatctaacatccgcttgacctgcatttgcggctcgtccgcaatgtcaggttgaagcgggtgttagatgatttttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ttagttttccccctatatttctaaaaatagcggctcagtgagccgaccatctaacatccgcttgacctgcatttgcggctcgtccgcaatgtcaggttgaagcgggtgttagatgatttttt Predict ORF larger than 30AA ================================================ ttagttttccccctatatttctaaaaatagcggctcagtgagccgaccatctaacatccgcttgacctgcatttgcggctcgtccgcaatgtcaggttgaagcgggtgttagatgatttttt 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================================================ ttagttttccccctatatttctaaaaatagcggctcagtgagccgaccatctaacatccgcttgacctgcatttgcggctcgtccgcaatgtcaggttgaagcgggtgttagatgatttttt Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 80 HP_score: -7.3 Tail_Score: -4.61231 Start: 28 End: 49 Full_Region: caagcggatgttaga tggtcggctc act gagccgcta tttttagaaatatag ...........................tggtcggctcactgagccgcta......................................................................... TransTerm Strand: - Conf: 70 HP_score: -7.9 Tail_Score: -3.91908 Start: 30 End: 46 Full_Region: gcggatgttagatgg tcggctc act gagccgc tatttttagaaatat .............................tcggctcactgagccgc............................................................................ TransTerm Strand: - Conf: 78 HP_score: -11.4 Tail_Score: -2.94422 Start: 31 End: 45 Full_Region: cggatgttagatggt cggctc act gagccg ctatttttagaaata ..............................cggctcactgagccg............................................................................. TransTerm Strand: + Conf: 73 HP_score: -10.3 Tail_Score: -3.15726 Start: 57 End: 106 Full_Region: GCCGACCATCTAACA TCCGCTTGACCTGCATTTGCGG CTCGT CCGCAATGTCAGGTTGAAGCGGG TGTTAGATGATTTTT ........................................................TCCGCTTGACCTGCATTTGCGGCTCGTCCGCAATGTCAGGTTGAAGCGGG................ Find igs database================================================ Query_seq: TDE1820:TDE1821|TDE1820:TDE1821:hypothetical protein:hypothetical protein:<-<-:1854783..1854904 122 ttagttttccccctatatttctaaaaatagcggctcagtgagccgaccatctaacatccgcttgacctgcatttgcggctcgtccgcaatgtcaggttgaagcgggtgttagatgatttttt Intra-Species Hit: Count: 1 Min: 1 Max: 122 Len: 122 Subject: NC_002967_TDE1820_TDE1821|hypothetical protein:hypothetical protein|NEGATIVE:NEGATIVE|[1854783,1854904]|122 HSP 1 e-value: 2.0E-63 bit: 242.0 Len: 122 Query Start:1 Query End:122 Subject Strand: POSITIVE Subject Start: 1 Subject End: 122 ttagttttccccctatatttctaaaaatagcggctcagtgagccgaccatctaacatccgcttgacctgcatttgcggctcgtccgcaatgtcaggttgaagcgggtgttagatgatttttt ttagttttccccctatatttctaaaaatagcggctcagtgagccgaccatctaacatccgcttgacctgcatttgcggctcgtccgcaatgtcaggttgaagcgggtgttagatgatttttt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUAGUUUUCCCCCUAUAUUUCUAAAAAUAGCGGCUCAGUGAGCCGACCAUCUAACAUCCGCUUGACCUGCAUUUGCGGCUCGUCCGCAAUGUCAGGUUGAAGCGGGUGUUAGAUGAUUUUUU ..............................((((((...))))))..((((((((((((((((((((((((((.((((.....)))))))).)))))).))))))))))))))))....... (-54.00) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAAAAAUCAUCUAACACCCGCUUCAACCUGACAUUGCGGACGAGCCGCAAAUGCAGGUCAAGCGGAUGUUAGAUGGUCGGCUCACUGAGCCGCUAUUUUUAGAAAUAUAGGGGGAAAACUAA .....(((((((((((.((((((..(((((.((((((((.....)))).))))))))).)))))).)))))))))))((((((...))))))...............(((........))). (-49.80) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 1091 80 31 171 122 NC_002967:TDE1820|5end_hypothetical_protein_1854692..1854922_NEGATIVE 1032 110 61 181 132 NC_002967:TDE1836|5end_hypothetical_protein_1869443..1869673_NEGATIVE 1032 110 61 185 136 NC_002967:TDE1827|5end_hydrolase,_carbon-nitrogen_family_1860830..1861060_NEGATIVE 1032 110 61 180 131 NC_002967:TDE1811|5end_hypothetical_protein_1847483..1847713_NEGATIVE 1032 110 61 189 140 NC_002967:TDE0267|5end_HAM1_protein_299108..299338_NEGATIVE 979 110 61 178 129 NC_002967:TDE1839|5end_hypothetical_protein_1871221..1871451_NEGATIVE 979 110 61 203 154 NC_002967:TDE1832|5end_hypothetical_protein_1865921..1866151_NEGATIVE 976 110 61 202 154 NC_002967:TDE1796|5end_hypothetical_protein_1835515..1835745_NEGATIVE 961 100 51 228 179 NC_002967:TDE1799|5end_hypothetical_protein_1837264..1837494_NEGATIVE 956 110 61 218 169 NC_002967:TDE1831|5end_hypothetical_protein_1865032..1865262_NEGATIVE 956 110 61 199 150 NC_002967:TDE1823|5end_hypothetical_protein_1856990..1857220_NEGATIVE 956 110 61 183 134 NC_002967:TDE1817|5end_hypothetical_protein_1852599..1852829_NEGATIVE 956 110 61 218 169 NC_002967:TDE1797|5end_hypothetical_protein_1836272..1836502_NEGATIVE 956 110 61 171 122 NC_002967:TDE1795|5end_funZ_protein,_putative_1834673..1834903_NEGATIVE 946 109 61 231 183 NC_002967:TDE1790|5end_hypothetical_protein_1828007..1828237_NEGATIVE 879 110 61 178 129 NC_002967:TDE1822|5end_hypothetical_protein_1855922..1856152_NEGATIVE 875 110 61 188 139 NC_002967:TDE1791|5end_hypothetical_protein_1828775..1829005_NEGATIVE 866 109 61 231 183 NC_002967:TDE1813|5end_hypothetical_protein_1848249..1848479_NEGATIVE 848 110 61 180 129 NC_002967:TDE1803|5end_hypothetical_protein_1839270..1839500_NEGATIVE 762 110 61 192 142 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 110 61 83 34 NC_002967:TDE1808|3end_hypothetical_protein_1844084..1844234_NEGATIVE 1032 110 61 82 33 NC_002967:TDE1837|3end_hypothetical_protein_1869542..1869692_NEGATIVE 1032 110 61 81 32 NC_002967:TDE1828|3end_hypothetical_protein_1860934..1861084_NEGATIVE 1032 110 61 83 34 NC_002967:TDE1812|3end_hypothetical_protein_1847580..1847730_NEGATIVE 1032 110 61 74 25 NC_002967:TDE1787|3end_hypothetical_protein_1826378..1826528_NEGATIVE 1032 110 61 92 43 NC_002967:TDE1780|3end_hypothetical_protein_1822183..1822333_NEGATIVE 1032 110 61 78 29 NC_002967:TDE0268|3end_hypothetical_protein_299219..299369_NEGATIVE 1013 110 61 87 38 NC_002967:TDE1806|3end_hypothetical_protein_1843190..1843340_NEGATIVE 1004 110 61 81 32 NC_002967:TDE1776|3end_hypothetical_protein_1818414..1818564_NEGATIVE 981 110 61 109 60 NC_002967:TDE1815|3end_hypothetical_protein_1849458..1849608_NEGATIVE 979 110 61 75 26 NC_002967:TDE1840|3end_hypothetical_protein_1871324..1871474_NEGATIVE 979 110 61 82 33 NC_002967:TDE1836|3end_hypothetical_protein_1868514..1868664_NEGATIVE 979 110 61 78 29 NC_002967:TDE1810|3end_hypothetical_protein_1845924..1846074_NEGATIVE 979 110 61 75 26 NC_002967:TDE1800|3end_hypothetical_protein_1837427..1837577_NEGATIVE 976 110 61 62 14 NC_002967:TDE1831|3end_hypothetical_protein_1864415..1864565_NEGATIVE 976 110 61 62 14 NC_002967:TDE1797|3end_hypothetical_protein_1835655..1835805_NEGATIVE 966 110 61 87 38 NC_002967:TDE1811|3end_hypothetical_protein_1846773..1846923_NEGATIVE 956 110 61 92 43 NC_002967:TDE1843|3end_hypothetical_protein_1872199..1872349_NEGATIVE 956 110 61 78 29 NC_002967:TDE1832|3end_hypothetical_protein_1865172..1865322_NEGATIVE 956 110 61 78 29 NC_002967:TDE1796|3end_hypothetical_protein_1834766..1834916_NEGATIVE