Origin IGS: ttttatgatacaatatcaatacctactacaataaaatttaaaaaaattattctttttttgcaccgcgaaagcggtgtcatgctaacattcgcttaacctgtatttgcggctcgtccgcaatgtcaggttgaagcgggtgttatggcaaaaatatttcttatacagaattagatttcttaaatccttttctctttaaggaaaattctgttatattttttgaagcgtatgcttctatatattgtactgttcctaaacggcataaaaccgcttcttcgtccaagcctgaaattatatccttta .........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 taaaggatataatttcaggcttggacgaagaagcggttttatgccgtttaggaacagtacaatatatagaagcatacgcttcaaaaaatataacagaattttccttaaagagaaaaggatttaagaaatctaattctgtataagaaatatttttgccataacacccgcttcaacctgacattgcggacgagccgcaaatacaggttaagcgaatgttagcatgacaccgctttcgcggtgcaaaaaaagaataatttttttaaattttattgtagtaggtattgatattgtatcataaaa Mask Tandem Repeat Region ================================================ ttttatgatacaatatcaatacctactacaataaaatttaaaaaaattattctttttttgcaccgcgaaagcggtgtcatgctaacattcgcttaacctgtatttgcggctcgtccgcaatgtcaggttgaagcgggtgttatggcaaaaatatttcttatacagaattagatttcttaaatccttttctctttaaggaaaattctgttatattttttgaagcgtatgcttctatatattgtactgttcctaaacggcataaaaccgcttcttcgtccaagcctgaaattatatccttta Find is-nt database================================================ Query_seq: TDE1790:TDE1791|TDE1790:TDE1791:hypothetical protein:hypothetical protein:<-<-:1828098..1828397 300 ttttatgatacaatatcaatacctactacaataaaatttaaaaaaattattctttttttgcaccgcgaaagcggtgtcatgctaacattcgcttaacctgtatttgcggctcgtccgcaatgtcaggttgaagcgggtgttatggcaaaaatatttcttatacagaattagatttcttaaatccttttctctttaaggaaaattctgttatattttttgaagcgtatgcttctatatattgtactgttcctaaacggcataaaaccgcttcttcgtccaagcctgaaattatatccttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TDE1790:TDE1791|TDE1790:TDE1791:hypothetical protein:hypothetical protein:<-<-:1828098..1828397 300 ttttatgatacaatatcaatacctactacaataaaatttaaaaaaattattctttttttgcaccgcgaaagcggtgtcatgctaacattcgcttaacctgtatttgcggctcgtccgcaatgtcaggttgaagcgggtgttatggcaaaaatatttcttatacagaattagatttcttaaatccttttctctttaaggaaaattctgttatattttttgaagcgtatgcttctatatattgtactgttcctaaacggcataaaaccgcttcttcgtccaagcctgaaattatatccttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TDE1790:TDE1791|TDE1790:TDE1791:hypothetical protein:hypothetical protein:<-<-:1828098..1828397 300 ttttatgatacaatatcaatacctactacaataaaatttaaaaaaattattctttttttgcaccgcgaaagcggtgtcatgctaacattcgcttaacctgtatttgcggctcgtccgcaatgtcaggttgaagcgggtgttatggcaaaaatatttcttatacagaattagatttcttaaatccttttctctttaaggaaaattctgttatattttttgaagcgtatgcttctatatattgtactgttcctaaacggcataaaaccgcttcttcgtccaagcctgaaattatatccttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ttttatgatacaatatcaatacctactacaataaaatttaaaaaaattattctttttttgcaccgcgaaagcggtgtcatgctaacattcgcttaacctgtatttgcggctcgtccgcaatgtcaggttgaagcgggtgttatggcaaaaatatttcttatacagaattagatttcttaaatccttttctctttaaggaaaattctgttatattttttgaagcgtatgcttctatatattgtactgttcctaaacggcataaaaccgcttcttcgtccaagcctgaaattatatccttta Predict ORF larger than 30AA ================================================ Protein_Len: 32 Strand: + Start: 98 End: 193 ................................................................................................. M Y L R L V R N V R L K R V L W Q K Y F L Y R I R F L K S F S L ........................................................................................................... Protein_Len: 49 Strand: + Start: 153 End: 299 ........................................................................................................................................................ M S Y T E L D F L N P F L F K E N S V I F F E A Y A S I Y C T V P K R H K T A S S S K P E I I S F . Protein_Len: 40 Strand: + Start: 181 End: 300 .................................................................................................................................................................................... M L F S L R K I L L Y F L K R M L L Y I V L F L N G I K P L L R P S L K L Y P L Protein_Len: 44 Strand: - Start: 161 End: 292 ................................................................................................................................................................ V S N S K K F G K R K L S F E T I N K S A Y A E I Y Q V T G L R C L V A E E D L G S I M ........ ttttatgatacaatatcaatacctactacaataaaatttaaaaaaattattctttttttgcaccgcgaaagcggtgtcatgctaacattcgcttaacctgtatttgcggctcgtccgcaatgtcaggttgaagcgggtgttatggcaaaaatatttcttatacagaattagatttcttaaatccttttctctttaaggaaaattctgttatattttttgaagcgtatgcttctatatattgtactgttcctaaacggcataaaaccgcttcttcgtccaagcctgaaattatatccttta 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================================================ ttttatgatacaatatcaatacctactacaataaaatttaaaaaaattattctttttttgcaccgcgaaagcggtgtcatgctaacattcgcttaacctgtatttgcggctcgtccgcaatgtcaggttgaagcgggtgttatggcaaaaatatttcttatacagaattagatttcttaaatccttttctctttaaggaaaattctgttatattttttgaagcgtatgcttctatatattgtactgttcctaaacggcataaaaccgcttcttcgtccaagcctgaaattatatccttta Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 83 HP_score: -10.4 Tail_Score: -3.29263 Start: 86 End: 139 Full_Region: GCGGTGTCATGCTAA CATTCGCTTAACCTGTATTTGCGG CTCGT CCGCAATGTCAGGTTGAAGCGGGTG TTATGGCAAAAATAT .....................................................................................CATTCGCTTAACCTGTATTTGCGGCTCGTCCGCAATGTCAGGTTGAAGCGGGTG................................................................................................................................................................. TransTerm Strand: - Conf: 43 HP_score: -2.8 Tail_Score: -3.05844 Start: 88 End: 137 Full_Region: atttttgccataaca cccgcttcaacctgacattgcgg acgag ccgcaaatacaggttaagcgaa tgttagcatgacacc .......................................................................................cccgcttcaacctgacattgcggacgagccgcaaatacaggttaagcgaa................................................................................................................................................................... Find igs database================================================ Query_seq: TDE1790:TDE1791|TDE1790:TDE1791:hypothetical protein:hypothetical protein:<-<-:1828098..1828397 300 ttttatgatacaatatcaatacctactacaataaaatttaaaaaaattattctttttttgcaccgcgaaagcggtgtcatgctaacattcgcttaacctgtatttgcggctcgtccgcaatgtcaggttgaagcgggtgttatggcaaaaatatttcttatacagaattagatttcttaaatccttttctctttaaggaaaattctgttatattttttgaagcgtatgcttctatatattgtactgttcctaaacggcataaaaccgcttcttcgtccaagcctgaaattatatccttta Intra-Species Hit: Count: 2 Min: 1 Max: 300 Len: 300 Subject: NC_002967_TDE1790_TDE1791|hypothetical protein:hypothetical protein|NEGATIVE:NEGATIVE|[1828098,1828397]|300 HSP 1 e-value: 1.0E-144 bit: 511.0 Len: 300 Query Start:1 Query End:300 Subject Strand: POSITIVE Subject Start: 1 Subject End: 300 ttttatgatacaatatcaatacctactacaataaaatttnnnnnnnttattcnnnnnnngcaccgcgaaagcggtgtcatgctaacattcgcttaacctgtatttgcggctcgtccgcaatgtcaggttgaagcgggtgttatggcaaaaatatttcttatacagaattagatttcttaaatccttttctctttaaggaaaattctgttatattttttgaagcgtatgcttctatatattgtactgttcctaaacggcataaaaccgcttcttcgtccaagcctgaaattatatccttta ttttatgatacaatatcaatacctactacaataaaatttaaaaaaattattctttttttgcaccgcgaaagcggtgtcatgctaacattcgcttaacctgtatttgcggctcgtccgcaatgtcaggttgaagcgggtgttatggcaaaaatatttcttatacagaattagatttcttaaatccttttctctttaaggaaaattctgttatattttttgaagcgtatgcttctatatattgtactgttcctaaacggcataaaaccgcttcttcgtccaagcctgaaattatatccttta Subject: NC_002967_TDE1813_TDE1814|hypothetical protein:hypothetical protein|NEGATIVE:NEGATIVE|[1848340,1848518]|179 HSP 1 e-value: 1.0E-42 bit: 174.0 Len: 142 Query Start:1 Query End:142 Subject Strand: POSITIVE Subject Start: 1 Subject End: 142 ttttatgatacaatatcaatacctactacaataaaatttnnnnnnnttattcnnnnnnngcaccgcgaaagcggtgtcatgctaacattcgcttaacctgtatttgcggctcgtccgcaatgtcaggttgaagcgggtgtta.............................................................................................................................................................. ttttatgatacaatatcaatacctactacaataaaatttgaaaaaattattctttttttgcaccgcgaaagcggtgtcatgctaacattcgcttaacctgcatttgtggcttgtccgcaatgtcaggttgaagcgggtgtta.............................................................................................................................................................. Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUUAUGAUACAAUAUCAAUACCUACUACAAUAAAAUUUAAAAAAAUUAUUCUUUUUUUGCACCGCGAAAGCGGUGUCAUGCUAACAUUCGCUUAACCUGUAUUUGCGGCUCGUCCGCAAUGUCAGGUUGAAGCGGGUGUUAUGGCAAAAAUAUUUCUUAUACAGAAUUAGAUUUCUUAAAUCCUUUUCUCUUUAAGGAAAAUUCUGUUAUAUUUUUUGAAGCGUAUGCUUCUAUAUAUUGUACUGUUCCUAAACGGCAUAAAACCGCUUCUUCGUCCAAGCCUGAAAUUAUAUCCUUUA ......((((.(((.(((........(((((((.......(((((((............(((((((....)))))))..(((((((((((((((((((((...((((((.....))))))...))))))).)))))))))..)))))..............((((((((...(((((((((..........)))))))))))))))))...)))))))(((((....)))))....)))))))(((((....))))).........((((........)))).))).))).))))..... (-79.80) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAGGAUAUAAUUUCAGGCUUGGACGAAGAAGCGGUUUUAUGCCGUUUAGGAACAGUACAAUAUAUAGAAGCAUACGCUUCAAAAAAUAUAACAGAAUUUUCCUUAAAGAGAAAAGGAUUUAAGAAAUCUAAUUCUGUAUAAGAAAUAUUUUUGCCAUAACACCCGCUUCAACCUGACAUUGCGGACGAGCCGCAAAUACAGGUUAAGCGAAUGUUAGCAUGACACCGCUUUCGCGGUGCAAAAAAAGAAUAAUUUUUUUAAAUUUUAUUGUAGUAGGUAUUGAUAUUGUAUCAUAAAA .....((((((((.(((((((((.......(((((((.....)))))))........(((((((....(((((....)))))..........((((((((.(((((........)))))............)))))))).((((((((((((((((..(((((..(((((.((((((...((((((.....))))))...)))))))))))..))))))).((.((((((....))))))))....)))))))..))))))).....))))))).))))).)))).))))))))...... (-86.02) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 1033 140 91 231 182 NC_002967:TDE1790|5end_hypothetical_protein_1828007..1828237_NEGATIVE 1029 140 91 180 131 NC_002967:TDE1836|5end_hypothetical_protein_1869443..1869673_NEGATIVE 1029 140 91 184 135 NC_002967:TDE1827|5end_hydrolase,_carbon-nitrogen_family_1860830..1861060_NEGATIVE 1029 140 91 179 130 NC_002967:TDE1811|5end_hypothetical_protein_1847483..1847713_NEGATIVE 1029 140 91 188 139 NC_002967:TDE0267|5end_HAM1_protein_299108..299338_NEGATIVE 980 140 91 200 151 NC_002967:TDE1820|5end_hypothetical_protein_1854692..1854922_NEGATIVE 957 140 91 201 153 NC_002967:TDE1796|5end_hypothetical_protein_1835515..1835745_NEGATIVE 953 140 91 217 168 NC_002967:TDE1831|5end_hypothetical_protein_1865032..1865262_NEGATIVE 953 140 91 198 149 NC_002967:TDE1823|5end_hypothetical_protein_1856990..1857220_NEGATIVE 953 140 91 182 133 NC_002967:TDE1817|5end_hypothetical_protein_1852599..1852829_NEGATIVE 953 140 91 217 168 NC_002967:TDE1797|5end_hypothetical_protein_1836272..1836502_NEGATIVE 953 140 91 170 121 NC_002967:TDE1795|5end_funZ_protein,_putative_1834673..1834903_NEGATIVE 937 100 51 191 142 NC_002967:TDE1813|5end_hypothetical_protein_1848249..1848479_NEGATIVE 904 140 91 177 128 NC_002967:TDE1839|5end_hypothetical_protein_1871221..1871451_NEGATIVE 904 140 91 202 153 NC_002967:TDE1832|5end_hypothetical_protein_1865921..1866151_NEGATIVE 876 140 91 177 128 NC_002967:TDE1822|5end_hypothetical_protein_1855922..1856152_NEGATIVE 845 140 91 179 128 NC_002967:TDE1803|5end_hypothetical_protein_1839270..1839500_NEGATIVE 818 130 82 227 179 NC_002967:TDE1799|5end_hypothetical_protein_1837264..1837494_NEGATIVE 759 140 91 191 141 NC_002967:TDE0262|5end_hypothetical_protein_296300..296530_NEGATIVE 705 118 72 231 181 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 1029 140 91 81 32 NC_002967:TDE1837|3end_hypothetical_protein_1869542..1869692_NEGATIVE 1029 140 91 80 31 NC_002967:TDE1828|3end_hypothetical_protein_1860934..1861084_NEGATIVE 1029 140 91 82 33 NC_002967:TDE1812|3end_hypothetical_protein_1847580..1847730_NEGATIVE 1029 140 91 73 24 NC_002967:TDE1787|3end_hypothetical_protein_1826378..1826528_NEGATIVE 1029 140 91 91 42 NC_002967:TDE1780|3end_hypothetical_protein_1822183..1822333_NEGATIVE 1029 140 91 77 28 NC_002967:TDE0268|3end_hypothetical_protein_299219..299369_NEGATIVE 1010 140 91 86 37 NC_002967:TDE1806|3end_hypothetical_protein_1843190..1843340_NEGATIVE 1004 140 91 80 31 NC_002967:TDE1776|3end_hypothetical_protein_1818414..1818564_NEGATIVE 980 140 91 77 28 NC_002967:TDE1821|3end_hypothetical_protein_1854815..1854965_NEGATIVE 980 140 91 82 33 NC_002967:TDE1808|3end_hypothetical_protein_1844084..1844234_NEGATIVE 978 140 91 108 59 NC_002967:TDE1815|3end_hypothetical_protein_1849458..1849608_NEGATIVE 963 140 91 86 37 NC_002967:TDE1811|3end_hypothetical_protein_1846773..1846923_NEGATIVE 957 140 91 61 13 NC_002967:TDE1831|3end_hypothetical_protein_1864415..1864565_NEGATIVE 957 140 91 61 13 NC_002967:TDE1797|3end_hypothetical_protein_1835655..1835805_NEGATIVE 953 140 91 91 42 NC_002967:TDE1843|3end_hypothetical_protein_1872199..1872349_NEGATIVE 953 140 91 77 28 NC_002967:TDE1832|3end_hypothetical_protein_1865172..1865322_NEGATIVE 953 140 91 77 28 NC_002967:TDE1796|3end_hypothetical_protein_1834766..1834916_NEGATIVE 929 140 91 91 42 NC_002967:TDE1793|3end_hydrolase,_carbon-nitrogen_family_1829957..1830107_NEGATIVE 923 140 91 82 33 NC_002967:TDE1789|3end_hypothetical_protein_1827338..1827488_NEGATIVE 911 140 91 75 26 NC_002967:TDE0097|3end_hypothetical_protein_114801..114951_POSITIVE