Origin IGS: aaaaactccttctactaaaaaagaaaaggcgtttccagaattcttatgtatttataatataatcatataaaatcaaaatgtcaagaaatcattaaaaaagttttgtatattcaatatataaagttctatctctgcaggtcttattatgtcttctggggtcattacatttgttgttagtctttaaaatctctgttgatttaaataaatcatttaatatggcaaagaatatcgcatacttttctttcgttttcagactgcaaagctgtgcacataacattcgcttaacctgcatttgcggctcgtccgcaatatcaggttgaagcgggtgttaga .........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 tctaacacccgcttcaacctgatattgcggacgagccgcaaatgcaggttaagcgaatgttatgtgcacagctttgcagtctgaaaacgaaagaaaagtatgcgatattctttgccatattaaatgatttatttaaatcaacagagattttaaagactaacaacaaatgtaatgaccccagaagacataataagacctgcagagatagaactttatatattgaatatacaaaacttttttaatgatttcttgacattttgattttatatgattatattataaatacataagaattctggaaacgccttttcttttttagtagaaggagttttt Mask Tandem Repeat Region ================================================ aaaaactccttctactaaaaaagaaaaggcgtttccagaattcttatgtatttataatataatcatataaaatcaaaatgtcaagaaatcattaaaaaagttttgtatattcaatatataaagttctatctctgcaggtcttattatgtcttctggggtcattacatttgttgttagtctttaaaatctctgttgatttaaataaatcatttaatatggcaaagaatatcgcatacttttctttcgttttcagactgcaaagctgtgcacataacattcgcttaacctgcatttgcggctcgtccgcaatatcaggttgaagcgggtgttaga Find is-nt database================================================ Query_seq: TDE1805:TDE1806|TDE1805:TDE1806:radical SAM domain protein:hypothetical protein:<-<-:1842947..1843279 333 aaaaactccttctactaaaaaagaaaaggcgtttccagaattcttatgtatttataatataatcatataaaatcaaaatgtcaagaaatcattaaaaaagttttgtatattcaatatataaagttctatctctgcaggtcttattatgtcttctggggtcattacatttgttgttagtctttaaaatctctgttgatttaaataaatcatttaatatggcaaagaatatcgcatacttttctttcgttttcagactgcaaagctgtgcacataacattcgcttaacctgcatttgcggctcgtccgcaatatcaggttgaagcgggtgttaga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TDE1805:TDE1806|TDE1805:TDE1806:radical SAM domain protein:hypothetical protein:<-<-:1842947..1843279 333 aaaaactccttctactaaaaaagaaaaggcgtttccagaattcttatgtatttataatataatcatataaaatcaaaatgtcaagaaatcattaaaaaagttttgtatattcaatatataaagttctatctctgcaggtcttattatgtcttctggggtcattacatttgttgttagtctttaaaatctctgttgatttaaataaatcatttaatatggcaaagaatatcgcatacttttctttcgttttcagactgcaaagctgtgcacataacattcgcttaacctgcatttgcggctcgtccgcaatatcaggttgaagcgggtgttaga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TDE1805:TDE1806|TDE1805:TDE1806:radical SAM domain protein:hypothetical protein:<-<-:1842947..1843279 333 aaaaactccttctactaaaaaagaaaaggcgtttccagaattcttatgtatttataatataatcatataaaatcaaaatgtcaagaaatcattaaaaaagttttgtatattcaatatataaagttctatctctgcaggtcttattatgtcttctggggtcattacatttgttgttagtctttaaaatctctgttgatttaaataaatcatttaatatggcaaagaatatcgcatacttttctttcgttttcagactgcaaagctgtgcacataacattcgcttaacctgcatttgcggctcgtccgcaatatcaggttgaagcgggtgttaga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aaaaactccttctactaaaaaagaaaaggcgtttccagaattcttatgtatttataatataatcatataaaatcaaaatgtcaagaaatcattaaaaaagttttgtatattcaatatataaagttctatctctgcaggtcttattatgtcttctggggtcattacatttgttgttagtctttaaaatctctgttgatttaaataaatcatttaatatggcaaagaatatcgcatacttttctttcgttttcagactgcaaagctgtgcacataacattcgcttaacctgcatttgcggctcgtccgcaatatcaggttgaagcgggtgttaga Predict ORF larger than 30AA ================================================ Protein_Len: 36 Strand: + Start: 67 End: 174 .................................................................. M K S K C Q E I I K K V L Y I Q Y I K F Y L C R S Y Y V F W G H Y I C C ............................................................................................................................................................... Protein_Len: 60 Strand: + Start: 114 End: 317 ................................................................................................................. M Y K V L S L Q V L L C L L G S L H L L L V F K I S V D L N K S F N M A K N I A Y F S F V F R L Q S C A H N I R L T C I ................ Protein_Len: 60 Strand: - Start: 95 End: 310 .............................................................................................. R C T K N H R R P D N C K N N T K L I E T S K F L D N L I A F F I A Y K E K T K L S C L Q A C L M R K V Q M Q P E D A M ....................... aaaaactccttctactaaaaaagaaaaggcgtttccagaattcttatgtatttataatataatcatataaaatcaaaatgtcaagaaatcattaaaaaagttttgtatattcaatatataaagttctatctctgcaggtcttattatgtcttctggggtcattacatttgttgttagtctttaaaatctctgttgatttaaataaatcatttaatatggcaaagaatatcgcatacttttctttcgttttcagactgcaaagctgtgcacataacattcgcttaacctgcatttgcggctcgtccgcaatatcaggttgaagcgggtgttaga Predict Promoter with matrix: RpoD-15 score > 80================================================ Predict Promoter with matrix: RpoD-16 score > 80================================================ Predict Promoter with matrix: RpoD-17 score > 80================================================ PromScan Matrix: RpoD-17 Strand: - Score: 89 Start: 56 End: 85 .......................................................CTTGACATTTTGATTTTATATGATTATATT........................................................................................................................................................................................................................................................ Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ aaaaactccttctactaaaaaagaaaaggcgtttccagaattcttatgtatttataatataatcatataaaatcaaaatgtcaagaaatcattaaaaaagttttgtatattcaatatataaagttctatctctgcaggtcttattatgtcttctggggtcattacatttgttgttagtctttaaaatctctgttgatttaaataaatcatttaatatggcaaagaatatcgcatacttttctttcgttttcagactgcaaagctgtgcacataacattcgcttaacctgcatttgcggctcgtccgcaatatcaggttgaagcgggtgttaga Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TDE1805:TDE1806|TDE1805:TDE1806:radical SAM domain protein:hypothetical protein:<-<-:1842947..1843279 333 aaaaactccttctactaaaaaagaaaaggcgtttccagaattcttatgtatttataatataatcatataaaatcaaaatgtcaagaaatcattaaaaaagttttgtatattcaatatataaagttctatctctgcaggtcttattatgtcttctggggtcattacatttgttgttagtctttaaaatctctgttgatttaaataaatcatttaatatggcaaagaatatcgcatacttttctttcgttttcagactgcaaagctgtgcacataacattcgcttaacctgcatttgcggctcgtccgcaatatcaggttgaagcgggtgttaga Intra-Species Hit: Count: 1 Min: 1 Max: 333 Len: 333 Subject: NC_002967_TDE1805_TDE1806|radical SAM domain protein:hypothetical protein|NEGATIVE:NEGATIVE|[1842947,1843279]|333 HSP 1 e-value: 0.0 bit: 660.0 Len: 333 Query Start:1 Query End:333 Subject Strand: POSITIVE Subject Start: 1 Subject End: 333 aaaaactccttctactaaaaaagaaaaggcgtttccagaattcttatgtatttataatataatcatataaaatcaaaatgtcaagaaatcattaaaaaagttttgtatattcaatatataaagttctatctctgcaggtcttattatgtcttctggggtcattacatttgttgttagtctttaaaatctctgttgatttaaataaatcatttaatatggcaaagaatatcgcatacttttctttcgttttcagactgcaaagctgtgcacataacattcgcttaacctgcatttgcggctcgtccgcaatatcaggttgaagcgggtgttaga aaaaactccttctactaaaaaagaaaaggcgtttccagaattcttatgtatttataatataatcatataaaatcaaaatgtcaagaaatcattaaaaaagttttgtatattcaatatataaagttctatctctgcaggtcttattatgtcttctggggtcattacatttgttgttagtctttaaaatctctgttgatttaaataaatcatttaatatggcaaagaatatcgcatacttttctttcgttttcagactgcaaagctgtgcacataacattcgcttaacctgcatttgcggctcgtccgcaatatcaggttgaagcgggtgttaga Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAAAACUCCUUCUACUAAAAAAGAAAAGGCGUUUCCAGAAUUCUUAUGUAUUUAUAAUAUAAUCAUAUAAAAUCAAAAUGUCAAGAAAUCAUUAAAAAAGUUUUGUAUAUUCAAUAUAUAAAGUUCUAUCUCUGCAGGUCUUAUUAUGUCUUCUGGGGUCAUUACAUUUGUUGUUAGUCUUUAAAAUCUCUGUUGAUUUAAAUAAAUCAUUUAAUAUGGCAAAGAAUAUCGCAUACUUUUCUUUCGUUUUCAGACUGCAAAGCUGUGCACAUAACAUUCGCUUAACCUGCAUUUGCGGCUCGUCCGCAAUAUCAGGUUGAAGCGGGUGUUAGA ...................((((((((((((.....((((((.(((((((((...((((((............((((((......((....))......)))))))))))).))))))))))))))).(((.(((.(..((((..........))))..).....(((((((...((((..((.......))..))))..)))))))...........))).)))....)))...))))))))).((...(((.((....))))).))...((((((((((((((((((...((((((.....))))))...))))))).))))))))))).. (-69.20) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UCUAACACCCGCUUCAACCUGAUAUUGCGGACGAGCCGCAAAUGCAGGUUAAGCGAAUGUUAUGUGCACAGCUUUGCAGUCUGAAAACGAAAGAAAAGUAUGCGAUAUUCUUUGCCAUAUUAAAUGAUUUAUUUAAAUCAACAGAGAUUUUAAAGACUAACAACAAAUGUAAUGACCCCAGAAGACAUAAUAAGACCUGCAGAGAUAGAACUUUAUAUAUUGAAUAUACAAAACUUUUUUAAUGAUUUCUUGACAUUUUGAUUUUAUAUGAUUAUAUUAUAAAUACAUAAGAAUUCUGGAAACGCCUUUUCUUUUUUAGUAGAAGGAGUUUUU ..(((((..(((((.((((((...((((((.....))))))...)))))))))))..))))).........((((((((((((....(....)...(((((((((......))).))))))...((((((....)))))).)))).....................((((..((....))....))))........))))))))..((((((((...(((((((...................((.((((((....((((.(..((((....))))..)))))....)))))).)).(....)...........)))))))...)))))))). (-68.30) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 960 330 281 181 132 NC_002967:TDE1836|5end_hypothetical_protein_1869443..1869673_NEGATIVE 960 330 281 185 136 NC_002967:TDE1827|5end_hydrolase,_carbon-nitrogen_family_1860830..1861060_NEGATIVE 960 330 281 180 131 NC_002967:TDE1811|5end_hypothetical_protein_1847483..1847713_NEGATIVE 960 330 281 189 140 NC_002967:TDE0267|5end_HAM1_protein_299108..299338_NEGATIVE 911 330 281 201 152 NC_002967:TDE1820|5end_hypothetical_protein_1854692..1854922_NEGATIVE 904 330 281 202 154 NC_002967:TDE1796|5end_hypothetical_protein_1835515..1835745_NEGATIVE 884 330 281 218 169 NC_002967:TDE1831|5end_hypothetical_protein_1865032..1865262_NEGATIVE 884 330 281 199 150 NC_002967:TDE1823|5end_hypothetical_protein_1856990..1857220_NEGATIVE 884 330 281 183 134 NC_002967:TDE1817|5end_hypothetical_protein_1852599..1852829_NEGATIVE 884 330 281 218 169 NC_002967:TDE1797|5end_hypothetical_protein_1836272..1836502_NEGATIVE 884 330 281 171 122 NC_002967:TDE1795|5end_funZ_protein,_putative_1834673..1834903_NEGATIVE 874 329 281 231 183 NC_002967:TDE1790|5end_hypothetical_protein_1828007..1828237_NEGATIVE 835 330 281 178 129 NC_002967:TDE1839|5end_hypothetical_protein_1871221..1871451_NEGATIVE 835 330 281 203 154 NC_002967:TDE1832|5end_hypothetical_protein_1865921..1866151_NEGATIVE 807 330 281 178 129 NC_002967:TDE1822|5end_hypothetical_protein_1855922..1856152_NEGATIVE 803 330 281 188 139 NC_002967:TDE1791|5end_hypothetical_protein_1828775..1829005_NEGATIVE 794 329 281 231 183 NC_002967:TDE1813|5end_hypothetical_protein_1848249..1848479_NEGATIVE 776 330 281 180 129 NC_002967:TDE1803|5end_hypothetical_protein_1839270..1839500_NEGATIVE 761 320 272 228 180 NC_002967:TDE1799|5end_hypothetical_protein_1837264..1837494_NEGATIVE 753 50 1 141 92 NC_002967:TDE1805|5end_radical_SAM_domain_protein_1842856..1843086_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 960 330 281 82 33 NC_002967:TDE1837|3end_hypothetical_protein_1869542..1869692_NEGATIVE 960 330 281 81 32 NC_002967:TDE1828|3end_hypothetical_protein_1860934..1861084_NEGATIVE 960 330 281 83 34 NC_002967:TDE1812|3end_hypothetical_protein_1847580..1847730_NEGATIVE 960 330 281 74 25 NC_002967:TDE1787|3end_hypothetical_protein_1826378..1826528_NEGATIVE 960 330 281 92 43 NC_002967:TDE1780|3end_hypothetical_protein_1822183..1822333_NEGATIVE 960 330 281 78 29 NC_002967:TDE0268|3end_hypothetical_protein_299219..299369_NEGATIVE 932 330 281 81 32 NC_002967:TDE1776|3end_hypothetical_protein_1818414..1818564_NEGATIVE 914 330 281 76 27 NC_002967:TDE0097|3end_hypothetical_protein_114801..114951_POSITIVE 911 330 281 78 29 NC_002967:TDE1821|3end_hypothetical_protein_1854815..1854965_NEGATIVE 911 330 281 83 34 NC_002967:TDE1808|3end_hypothetical_protein_1844084..1844234_NEGATIVE 909 330 281 109 60 NC_002967:TDE1815|3end_hypothetical_protein_1849458..1849608_NEGATIVE 904 330 281 62 14 NC_002967:TDE1831|3end_hypothetical_protein_1864415..1864565_NEGATIVE 904 330 281 62 14 NC_002967:TDE1797|3end_hypothetical_protein_1835655..1835805_NEGATIVE 894 330 281 87 38 NC_002967:TDE1811|3end_hypothetical_protein_1846773..1846923_NEGATIVE 884 330 281 92 43 NC_002967:TDE1843|3end_hypothetical_protein_1872199..1872349_NEGATIVE 884 330 281 78 29 NC_002967:TDE1832|3end_hypothetical_protein_1865172..1865322_NEGATIVE 884 330 281 78 29 NC_002967:TDE1796|3end_hypothetical_protein_1834766..1834916_NEGATIVE 857 330 281 92 43 NC_002967:TDE1793|3end_hydrolase,_carbon-nitrogen_family_1829957..1830107_NEGATIVE 854 330 281 83 34 NC_002967:TDE1789|3end_hypothetical_protein_1827338..1827488_NEGATIVE 835 330 281 75 26 NC_002967:TDE1840|3end_hypothetical_protein_1871324..1871474_NEGATIVE