Origin IGS: ttgcgtattccttattgtattaaatcttgtcaaactaactaccgcttaacctgcatttgcggctttgcctcaagcgaatcgtaaggcaaagttggcgtaaaacttgtggtgccatataggcacattaagcaagttttatgacaaaacaaatgtcagcgttggagcgggcg .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 cgcccgctccaacgctgacatttgttttgtcataaaacttgcttaatgtgcctatatggcaccacaagttttacgccaactttgccttacgattcgcttgaggcaaagccgcaaatgcaggttaagcggtagttagtttgacaagatttaatacaataaggaatacgcaa Mask Tandem Repeat Region ================================================ ttgcgtattccttattgtattaaatcttgtcaaactaactaccgcttaacctgcatttgcggctttgcctcaagcgaatcgtaaggcaaagttggcgtaaaacttgtggtgccatataggcacattaagcaagttttatgacaaaacaaatgtcagcgttggagcgggcg Find is-nt database================================================ Query_seq: TDE1793:TDE1794|TDE1793:TDE1794:hydrolase, carbon-nitrogen family:hypothetical protein:<-<-:1830935..1831104 170 ttgcgtattccttattgtattaaatcttgtcaaactaactaccgcttaacctgcatttgcggctttgcctcaagcgaatcgtaaggcaaagttggcgtaaaacttgtggtgccatataggcacattaagcaagttttatgacaaaacaaatgtcagcgttggagcgggcg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TDE1793:TDE1794|TDE1793:TDE1794:hydrolase, carbon-nitrogen family:hypothetical protein:<-<-:1830935..1831104 170 ttgcgtattccttattgtattaaatcttgtcaaactaactaccgcttaacctgcatttgcggctttgcctcaagcgaatcgtaaggcaaagttggcgtaaaacttgtggtgccatataggcacattaagcaagttttatgacaaaacaaatgtcagcgttggagcgggcg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TDE1793:TDE1794|TDE1793:TDE1794:hydrolase, carbon-nitrogen family:hypothetical protein:<-<-:1830935..1831104 170 ttgcgtattccttattgtattaaatcttgtcaaactaactaccgcttaacctgcatttgcggctttgcctcaagcgaatcgtaaggcaaagttggcgtaaaacttgtggtgccatataggcacattaagcaagttttatgacaaaacaaatgtcagcgttggagcgggcg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ttgcgtattccttattgtattaaatcttgtcaaactaactaccgcttaacctgcatttgcggctttgcctcaagcgaatcgtaaggcaaagttggcgtaaaacttgtggtgccatataggcacattaagcaagttttatgacaaaacaaatgtcagcgttggagcgggcg Predict ORF larger than 30AA ================================================ Protein_Len: 36 Strand: - Start: 42 End: 149 ......................................... R K V Q M Q P K A E L S D Y P L T P T F S T T G Y L C M L C T K H C F M ..................... ttgcgtattccttattgtattaaatcttgtcaaactaactaccgcttaacctgcatttgcggctttgcctcaagcgaatcgtaaggcaaagttggcgtaaaacttgtggtgccatataggcacattaagcaagttttatgacaaaacaaatgtcagcgttggagcgggcg 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================================================ ttgcgtattccttattgtattaaatcttgtcaaactaactaccgcttaacctgcatttgcggctttgcctcaagcgaatcgtaaggcaaagttggcgtaaaacttgtggtgccatataggcacattaagcaagttttatgacaaaacaaatgtcagcgttggagcgggcg Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TDE1793:TDE1794|TDE1793:TDE1794:hydrolase, carbon-nitrogen family:hypothetical protein:<-<-:1830935..1831104 170 ttgcgtattccttattgtattaaatcttgtcaaactaactaccgcttaacctgcatttgcggctttgcctcaagcgaatcgtaaggcaaagttggcgtaaaacttgtggtgccatataggcacattaagcaagttttatgacaaaacaaatgtcagcgttggagcgggcg Intra-Species Hit: Count: 1 Min: 1 Max: 170 Len: 170 Subject: NC_002967_TDE1793_TDE1794|hydrolase, carbon-nitrogen family:hypothetical protein|NEGATIVE:NEGATIVE|[1830935,1831104]|170 HSP 1 e-value: 7.0E-92 bit: 337.0 Len: 170 Query Start:1 Query End:170 Subject Strand: POSITIVE Subject Start: 1 Subject End: 170 ttgcgtattccttattgtattaaatcttgtcaaactaactaccgcttaacctgcatttgcggctttgcctcaagcgaatcgtaaggcaaagttggcgtaaaacttgtggtgccatataggcacattaagcaagttttatgacaaaacaaatgtcagcgttggagcgggcg ttgcgtattccttattgtattaaatcttgtcaaactaactaccgcttaacctgcatttgcggctttgcctcaagcgaatcgtaaggcaaagttggcgtaaaacttgtggtgccatataggcacattaagcaagttttatgacaaaacaaatgtcagcgttggagcgggcg Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUGCGUAUUCCUUAUUGUAUUAAAUCUUGUCAAACUAACUACCGCUUAACCUGCAUUUGCGGCUUUGCCUCAAGCGAAUCGUAAGGCAAAGUUGGCGUAAAACUUGUGGUGCCAUAUAGGCACAUUAAGCAAGUUUUAUGACAAAACAAAUGUCAGCGUUGGAGCGGGCG .........................................(((((((((((((((((((((((((((((...(((...))).))))))))))).((((((((((((.(((((.....))))).....))))))))))))......)))))).))).))).))))))... (-58.60) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CGCCCGCUCCAACGCUGACAUUUGUUUUGUCAUAAAACUUGCUUAAUGUGCCUAUAUGGCACCACAAGUUUUACGCCAACUUUGCCUUACGAUUCGCUUGAGGCAAAGCCGCAAAUGCAGGUUAAGCGGUAGUUAGUUUGACAAGAUUUAAUACAAUAAGGAAUACGCAA .(((((((..(((.(((.(((((((.(((.(.(((((((((......(((((.....)))))..))))))))).).)))((((((((((.(.....).))))))))))..))))))))))))).)))))..((.(((((....)))))....))............)).. (-49.10) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 996 90 41 181 132 NC_002967:TDE1793|5end_hydrolase,_carbon-nitrogen_family_1830844..1831074_NEGATIVE 799 60 11 151 102 NC_002967:TDE1827|5end_hydrolase,_carbon-nitrogen_family_1860830..1861060_NEGATIVE 723 69 28 158 117 NC_002967:TDE1781|5end_hypothetical_protein_1823260..1823490_NEGATIVE 583 77 31 159 115 NC_002967:TDE1803|5end_hypothetical_protein_1839270..1839500_NEGATIVE 569 69 27 146 104 NC_002967:TDE1795|5end_funZ_protein,_putative_1834673..1834903_NEGATIVE 567 70 27 166 123 NC_002967:TDE0279|5end_hypothetical_protein_309782..310012_NEGATIVE 560 69 28 153 112 NC_002967:TDE1822|5end_hypothetical_protein_1855922..1856152_NEGATIVE 539 69 28 174 133 NC_002967:TDE1823|5end_hypothetical_protein_1856990..1857220_NEGATIVE 519 88 43 194 138 NC_002967:TDE0267|5end_HAM1_protein_299108..299338_NEGATIVE 517 69 29 230 190 NC_002967:TDE1818|5end_hypothetical_protein_1853791..1854021_NEGATIVE 513 87 43 187 146 NC_002967:TDE1769|5end_hypothetical_protein_1814377..1814607_NEGATIVE 508 87 43 222 167 NC_002967:TDE1797|5end_hypothetical_protein_1836272..1836502_NEGATIVE 504 76 31 174 117 NC_002967:TDE1811|5end_hypothetical_protein_1847483..1847713_NEGATIVE 500 68 28 158 115 NC_002967:TDE1836|5end_hypothetical_protein_1869443..1869673_NEGATIVE 500 76 35 212 159 NC_002967:TDE1831|5end_hypothetical_protein_1865032..1865262_NEGATIVE 499 76 31 172 115 NC_002967:TDE1839|5end_hypothetical_protein_1871221..1871451_NEGATIVE 490 69 28 213 172 NC_002967:TDE1799|5end_hypothetical_protein_1837264..1837494_NEGATIVE 485 76 36 178 133 NC_002967:TDE0262|5end_hypothetical_protein_296300..296530_NEGATIVE 483 76 35 195 142 NC_002967:TDE1820|5end_hypothetical_protein_1854692..1854922_NEGATIVE 478 168 128 109 70 NC_002967:TDE0587|5end_hypothetical_protein_625749..625979_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 792 68 21 58 8 NC_002967:TDE1828|3end_hypothetical_protein_1860934..1861084_NEGATIVE 723 69 28 114 73 NC_002967:TDE1782|3end_hypothetical_protein_1823304..1823454_NEGATIVE 588 168 125 88 45 NC_002967:TDE1803|3end_hypothetical_protein_1838395..1838545_NEGATIVE 588 76 31 75 18 NC_002967:TDE1776|3end_hypothetical_protein_1818414..1818564_NEGATIVE 569 69 27 53 11 NC_002967:TDE1796|3end_hypothetical_protein_1834766..1834916_NEGATIVE 567 70 27 53 10 NC_002967:TDE0280|3end_PIN_domain_protein_309895..310045_NEGATIVE 543 68 27 69 19 NC_002967:TDE1780|3end_hypothetical_protein_1822183..1822333_NEGATIVE 541 77 31 66 24 NC_002967:TDE1811|3end_hypothetical_protein_1846773..1846923_NEGATIVE 524 86 42 62 24 NC_002967:TDE0097|3end_hypothetical_protein_114801..114951_POSITIVE 522 68 26 60 15 NC_002967:TDE1808|3end_hypothetical_protein_1844084..1844234_NEGATIVE 519 88 43 83 27 NC_002967:TDE0268|3end_hypothetical_protein_299219..299369_NEGATIVE 504 76 31 77 20 NC_002967:TDE1812|3end_hypothetical_protein_1847580..1847730_NEGATIVE 502 168 123 77 32 NC_002967:TDE1771|3end_hypothetical_protein_1814579..1814729_NEGATIVE 500 76 35 86 33 NC_002967:TDE1843|3end_hypothetical_protein_1872199..1872349_NEGATIVE 500 68 28 59 16 NC_002967:TDE1837|3end_hypothetical_protein_1869542..1869692_NEGATIVE 500 76 35 72 19 NC_002967:TDE1832|3end_hypothetical_protein_1865172..1865322_NEGATIVE 499 76 31 69 12 NC_002967:TDE1840|3end_hypothetical_protein_1871324..1871474_NEGATIVE 495 69 27 57 9 NC_002967:TDE1836|3end_hypothetical_protein_1868514..1868664_NEGATIVE 494 76 35 68 15 NC_002967:TDE1787|3end_hypothetical_protein_1826378..1826528_NEGATIVE 490 69 28 50 9 NC_002967:TDE1800|3end_hypothetical_protein_1837427..1837577_NEGATIVE