Origin IGS: accatacctcttatttataaaaaaatattcgcaccgcgaaagcggtgtccatctaacattcgcttaacctgctttgcggctcgtccgcaatgtcaggttgaagcgggtgttagacgttatttttaaatataactatata .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tatatagttatatttaaaaataacgtctaacacccgcttcaacctgacattgcggacgagccgcaaagcaggttaagcgaatgttagatggacaccgctttcgcggtgcgaatatttttttataaataagaggtatggt Mask Tandem Repeat Region ================================================ accatacctcttatttataaaaaaatattcgcaccgcgaaagcggtgtccatctaacattcgcttaacctgctttgcggctcgtccgcaatgtcaggttgaagcgggtgttagacgttatttttaaatataactatata Find is-nt database================================================ Query_seq: TDE1796:TDE1797|TDE1796:TDE1797:hypothetical protein:hypothetical protein:<-<-:1835606..1835744 139 accatacctcttatttataaaaaaatattcgcaccgcgaaagcggtgtccatctaacattcgcttaacctgctttgcggctcgtccgcaatgtcaggttgaagcgggtgttagacgttatttttaaatataactatata Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TDE1796:TDE1797|TDE1796:TDE1797:hypothetical protein:hypothetical protein:<-<-:1835606..1835744 139 accatacctcttatttataaaaaaatattcgcaccgcgaaagcggtgtccatctaacattcgcttaacctgctttgcggctcgtccgcaatgtcaggttgaagcgggtgttagacgttatttttaaatataactatata Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TDE1796:TDE1797|TDE1796:TDE1797:hypothetical protein:hypothetical protein:<-<-:1835606..1835744 139 accatacctcttatttataaaaaaatattcgcaccgcgaaagcggtgtccatctaacattcgcttaacctgctttgcggctcgtccgcaatgtcaggttgaagcgggtgttagacgttatttttaaatataactatata Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 accatacctcttatttataaaaaaatattcgcaccgcgaaagcggtgtccatctaacattcgcttaacctgctttgcggctcgtccgcaatgtcaggttgaagcgggtgttagacgttatttttaaatataactatata Predict ORF larger than 30AA ================================================ Protein_Len: 40 Strand: + Start: 4 End: 123 ... M P L I Y K K I F A P R K R C P S N I R L T C F A A R P Q C Q V E A G V R R Y F ................ accatacctcttatttataaaaaaatattcgcaccgcgaaagcggtgtccatctaacattcgcttaacctgctttgcggctcgtccgcaatgtcaggttgaagcgggtgttagacgttatttttaaatataactatata 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================================================ accatacctcttatttataaaaaaatattcgcaccgcgaaagcggtgtccatctaacattcgcttaacctgctttgcggctcgtccgcaatgtcaggttgaagcgggtgttagacgttatttttaaatataactatata Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 86 HP_score: -2.6 Tail_Score: -5.64274 Start: 26 End: 41 Full_Region: ttagatggacaccgc tttcgc ggt gcgaata tttttttataaataa .........................tttcgcggtgcgaata.................................................................................................. TransTerm Strand: - Conf: 79 HP_score: -7.7 Tail_Score: -4.46105 Start: 28 End: 40 Full_Region: tagatggacaccgct ttcgc ggt gcgaa tatttttttataaat ...........................ttcgcggtgcgaa................................................................................................... TransTerm Strand: + Conf: 73 HP_score: -10.5 Tail_Score: -3.08349 Start: 59 End: 107 Full_Region: GGTGTCCATCTAACA TTCGCTTAACCTGCTTTGCGG CTCGT CCGCAATGTCAGGTTGAAGCGGG TGTTAGACGTTATTT ..........................................................TTCGCTTAACCTGCTTTGCGGCTCGTCCGCAATGTCAGGTTGAAGCGGG................................ TransTerm Strand: - Conf: 55 HP_score: -6.1 Tail_Score: -3.08679 Start: 59 End: 107 Full_Region: aaataacgtctaaca cccgcttcaacctgacattgcgg acgag ccgcaaagcaggttaagcgaa tgttagatggacacc ..........................................................cccgcttcaacctgacattgcggacgagccgcaaagcaggttaagcgaa................................ Find igs database================================================ Query_seq: TDE1796:TDE1797|TDE1796:TDE1797:hypothetical protein:hypothetical protein:<-<-:1835606..1835744 139 accatacctcttatttataaaaaaatattcgcaccgcgaaagcggtgtccatctaacattcgcttaacctgctttgcggctcgtccgcaatgtcaggttgaagcgggtgttagacgttatttttaaatataactatata Intra-Species Hit: Count: 2 Min: 1 Max: 139 Len: 139 Subject: NC_002967_TDE1796_TDE1797|hypothetical protein:hypothetical protein|NEGATIVE:NEGATIVE|[1835606,1835744]|139 HSP 1 e-value: 6.0E-61 bit: 234.0 Len: 139 Query Start:1 Query End:139 Subject Strand: POSITIVE Subject Start: 1 Subject End: 139 accatacctcttatttatnnnnnnntattcgcaccgcgaaagcggtgtccatctaacattcgcttaacctgctttgcggctcgtccgcaatgtcaggttgaagcgggtgttagacgttatttttaaatataactatata accatacctcttatttataaaaaaatattcgcaccgcgaaagcggtgtccatctaacattcgcttaacctgctttgcggctcgtccgcaatgtcaggttgaagcgggtgttagacgttatttttaaatataactatata Subject: NC_002967_TDE1832_TDE1833|hypothetical protein:hypothetical protein|NEGATIVE:NEGATIVE|[1866012,1866366]|355 HSP 1 e-value: 1.0E-37 bit: 157.0 Len: 115 Query Start:1 Query End:115 Subject Strand: POSITIVE Subject Start: 1 Subject End: 116 accatacctcttatttatnnnnnnntattcgcaccgcgaaagcggtgtccatctaacattcgcttaacctgc-tttgcggctcgtccgcaatgtcaggttgaagcgggtgttagac........................ accatacctcttatttataaaaaaatattcgcaccgcgaaagcggtgtccatctaacattcgcttgacctgcatttgcggcttgtccgcaatgtcaggttgaagcgggtgttagac........................ Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ ACCAUACCUCUUAUUUAUAAAAAAAUAUUCGCACCGCGAAAGCGGUGUCCAUCUAACAUUCGCUUAACCUGCUUUGCGGCUCGUCCGCAAUGUCAGGUUGAAGCGGGUGUUAGACGUUAUUUUUAAAUAUAACUAUAUA ..............(((((.(((((((...(((((((....)))))))...(((((((((((((((((((((.((((((.....)))))).).))))))).)))))))))))))...)))))))...)))))....... (-55.00) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAUAUAGUUAUAUUUAAAAAUAACGUCUAACACCCGCUUCAACCUGACAUUGCGGACGAGCCGCAAAGCAGGUUAAGCGAAUGUUAGAUGGACACCGCUUUCGCGGUGCGAAUAUUUUUUUAUAAAUAAGAGGUAUGGU (((((..(((((...(((((((.(((((((((..(((((.((((((.(.((((((.....)))))).))))))))))))..)))))))))..((((((....))))))....))))))).))))).......))))).. (-51.70) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 1080 110 61 201 152 NC_002967:TDE1796|5end_hypothetical_protein_1835515..1835745_NEGATIVE 1035 110 61 180 130 NC_002967:TDE1836|5end_hypothetical_protein_1869443..1869673_NEGATIVE 1035 110 61 184 134 NC_002967:TDE1827|5end_hydrolase,_carbon-nitrogen_family_1860830..1861060_NEGATIVE 1035 110 61 179 129 NC_002967:TDE1811|5end_hypothetical_protein_1847483..1847713_NEGATIVE 1035 110 61 188 138 NC_002967:TDE0267|5end_HAM1_protein_299108..299338_NEGATIVE 991 110 61 231 181 NC_002967:TDE1790|5end_hypothetical_protein_1828007..1828237_NEGATIVE 986 110 61 200 150 NC_002967:TDE1820|5end_hypothetical_protein_1854692..1854922_NEGATIVE 959 110 61 217 167 NC_002967:TDE1831|5end_hypothetical_protein_1865032..1865262_NEGATIVE 959 110 61 198 148 NC_002967:TDE1823|5end_hypothetical_protein_1856990..1857220_NEGATIVE 959 110 61 182 132 NC_002967:TDE1817|5end_hypothetical_protein_1852599..1852829_NEGATIVE 959 110 61 170 120 NC_002967:TDE1795|5end_funZ_protein,_putative_1834673..1834903_NEGATIVE 958 80 31 172 122 NC_002967:TDE1832|5end_hypothetical_protein_1865921..1866151_NEGATIVE 910 110 61 177 127 NC_002967:TDE1839|5end_hypothetical_protein_1871221..1871451_NEGATIVE 882 110 61 177 127 NC_002967:TDE1822|5end_hypothetical_protein_1855922..1856152_NEGATIVE 878 110 61 231 181 NC_002967:TDE1813|5end_hypothetical_protein_1848249..1848479_NEGATIVE 878 110 61 187 137 NC_002967:TDE1791|5end_hypothetical_protein_1828775..1829005_NEGATIVE 851 110 61 179 127 NC_002967:TDE1803|5end_hypothetical_protein_1839270..1839500_NEGATIVE 806 100 52 227 178 NC_002967:TDE1799|5end_hypothetical_protein_1837264..1837494_NEGATIVE 765 110 61 191 140 NC_002967:TDE0262|5end_hypothetical_protein_296300..296530_NEGATIVE 750 88 43 231 181 NC_002967:TDE1814|5end_hypothetical_protein_1849313..1849543_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 1080 110 61 61 12 NC_002967:TDE1831|3end_hypothetical_protein_1864415..1864565_NEGATIVE 1035 110 61 81 31 NC_002967:TDE1837|3end_hypothetical_protein_1869542..1869692_NEGATIVE 1035 110 61 80 30 NC_002967:TDE1828|3end_hypothetical_protein_1860934..1861084_NEGATIVE 1035 110 61 82 32 NC_002967:TDE1812|3end_hypothetical_protein_1847580..1847730_NEGATIVE 1035 110 61 73 23 NC_002967:TDE1787|3end_hypothetical_protein_1826378..1826528_NEGATIVE 1035 110 61 91 41 NC_002967:TDE1780|3end_hypothetical_protein_1822183..1822333_NEGATIVE 1035 110 61 77 27 NC_002967:TDE0268|3end_hypothetical_protein_299219..299369_NEGATIVE 1016 110 61 108 58 NC_002967:TDE1815|3end_hypothetical_protein_1849458..1849608_NEGATIVE 1016 110 61 86 36 NC_002967:TDE1806|3end_hypothetical_protein_1843190..1843340_NEGATIVE 1007 110 61 80 30 NC_002967:TDE1776|3end_hypothetical_protein_1818414..1818564_NEGATIVE 986 110 61 77 27 NC_002967:TDE1821|3end_hypothetical_protein_1854815..1854965_NEGATIVE 986 110 61 82 32 NC_002967:TDE1808|3end_hypothetical_protein_1844084..1844234_NEGATIVE 969 110 61 86 36 NC_002967:TDE1811|3end_hypothetical_protein_1846773..1846923_NEGATIVE 959 110 61 91 41 NC_002967:TDE1843|3end_hypothetical_protein_1872199..1872349_NEGATIVE 959 110 61 77 27 NC_002967:TDE1832|3end_hypothetical_protein_1865172..1865322_NEGATIVE 959 110 61 77 27 NC_002967:TDE1796|3end_hypothetical_protein_1834766..1834916_NEGATIVE 929 110 61 82 32 NC_002967:TDE1789|3end_hypothetical_protein_1827338..1827488_NEGATIVE 917 110 61 75 25 NC_002967:TDE0097|3end_hypothetical_protein_114801..114951_POSITIVE 912 110 61 91 41 NC_002967:TDE1793|3end_hydrolase,_carbon-nitrogen_family_1829957..1830107_NEGATIVE 910 110 61 74 24 NC_002967:TDE1840|3end_hypothetical_protein_1871324..1871474_NEGATIVE