Origin IGS: accatacctcttatttataaaaaaatattcgcaccgcgaaagcggtgtccatctaacattcgcttgacctgcatttgcggcttgtccgcaatgtcaggttgaagcgggtgttagactttctatatacatattcttaaaactcttatgaaagtcttttaaattttataatgactcttcaatcgcacaattcattacataaatttgataatcttaatttagtatttgcaagaaatacactagcttttgcagatacttcactcgttttaatatcttctgctaaaaaaactaatagtattttaatcaatactattagatattttataattacctttaaattcatagtgtttttctagca .........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 tgctagaaaaacactatgaatttaaaggtaattataaaatatctaatagtattgattaaaatactattagtttttttagcagaagatattaaaacgagtgaagtatctgcaaaagctagtgtatttcttgcaaatactaaattaagattatcaaatttatgtaatgaattgtgcgattgaagagtcattataaaatttaaaagactttcataagagttttaagaatatgtatatagaaagtctaacacccgcttcaacctgacattgcggacaagccgcaaatgcaggtcaagcgaatgttagatggacaccgctttcgcggtgcgaatatttttttataaataagaggtatggt Mask Tandem Repeat Region ================================================ accatacctcttatttataaaaaaatattcgcaccgcgaaagcggtgtccatctaacattcgcttgacctgcatttgcggcttgtccgcaatgtcaggttgaagcgggtgttagactttctatatacatattcttaaaactcttatgaaagtcttttaaattttataatgactcttcaatcgcacaattcattacataaatttgataatcttaatttagtatttgcaagaaatacactagcttttgcagatacttcactcgttttaatatcttctgctaaaaaaactaatagtattttaatcaatactattagatattttataattacctttaaattcatagtgtttttctagca Find is-nt database================================================ Query_seq: TDE1832:TDE1833|TDE1832:TDE1833:hypothetical protein:hypothetical protein:<-<-:1866012..1866366 355 accatacctcttatttataaaaaaatattcgcaccgcgaaagcggtgtccatctaacattcgcttgacctgcatttgcggcttgtccgcaatgtcaggttgaagcgggtgttagactttctatatacatattcttaaaactcttatgaaagtcttttaaattttataatgactcttcaatcgcacaattcattacataaatttgataatcttaatttagtatttgcaagaaatacactagcttttgcagatacttcactcgttttaatatcttctgctaaaaaaactaatagtattttaatcaatactattagatattttataattacctttaaattcatagtgtttttctagca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TDE1832:TDE1833|TDE1832:TDE1833:hypothetical protein:hypothetical protein:<-<-:1866012..1866366 355 accatacctcttatttataaaaaaatattcgcaccgcgaaagcggtgtccatctaacattcgcttgacctgcatttgcggcttgtccgcaatgtcaggttgaagcgggtgttagactttctatatacatattcttaaaactcttatgaaagtcttttaaattttataatgactcttcaatcgcacaattcattacataaatttgataatcttaatttagtatttgcaagaaatacactagcttttgcagatacttcactcgttttaatatcttctgctaaaaaaactaatagtattttaatcaatactattagatattttataattacctttaaattcatagtgtttttctagca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TDE1832:TDE1833|TDE1832:TDE1833:hypothetical protein:hypothetical protein:<-<-:1866012..1866366 355 accatacctcttatttataaaaaaatattcgcaccgcgaaagcggtgtccatctaacattcgcttgacctgcatttgcggcttgtccgcaatgtcaggttgaagcgggtgttagactttctatatacatattcttaaaactcttatgaaagtcttttaaattttataatgactcttcaatcgcacaattcattacataaatttgataatcttaatttagtatttgcaagaaatacactagcttttgcagatacttcactcgttttaatatcttctgctaaaaaaactaatagtattttaatcaatactattagatattttataattacctttaaattcatagtgtttttctagca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 accatacctcttatttataaaaaaatattcgcaccgcgaaagcggtgtccatctaacattcgcttgacctgcatttgcggcttgtccgcaatgtcaggttgaagcgggtgttagactttctatatacatattcttaaaactcttatgaaagtcttttaaattttataatgactcttcaatcgcacaattcattacataaatttgataatcttaatttagtatttgcaagaaatacactagcttttgcagatacttcactcgttttaatatcttctgctaaaaaaactaatagtattttaatcaatactattagatattttataattacctttaaattcatagtgtttttctagca Predict ORF larger than 30AA ================================================ Protein_Len: 32 Strand: + Start: 4 End: 99 ... M P L I Y K K I F A P R K R C P S N I R L T C I C G L S A M S G ................................................................................................................................................................................................................................................................ Protein_Len: 60 Strand: + Start: 165 End: 350 .................................................................................................................................................................... M M T L Q S H N S L H K F D N L N L V F A R N T L A F A D T S L V L I S S A K K T N S I L I N T I R Y F I I T F K F I V ..... Protein_Len: 54 Strand: - Start: 179 End: 340 .................................................................................................................................................................................. D C L E N C L N S L R L K T N A L F V S A K A S V E S T K I D E A L F V L L I K I L V I L Y K I I V K L N M ............... accatacctcttatttataaaaaaatattcgcaccgcgaaagcggtgtccatctaacattcgcttgacctgcatttgcggcttgtccgcaatgtcaggttgaagcgggtgttagactttctatatacatattcttaaaactcttatgaaagtcttttaaattttataatgactcttcaatcgcacaattcattacataaatttgataatcttaatttagtatttgcaagaaatacactagcttttgcagatacttcactcgttttaatatcttctgctaaaaaaactaatagtattttaatcaatactattagatattttataattacctttaaattcatagtgtttttctagca 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: 83 Start: 296 End: 325 .......................................................................................................................................................................................................................................................................................................TTTAATCAATACTATTAGATATTTTATAAT.............................. Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ accatacctcttatttataaaaaaatattcgcaccgcgaaagcggtgtccatctaacattcgcttgacctgcatttgcggcttgtccgcaatgtcaggttgaagcgggtgttagactttctatatacatattcttaaaactcttatgaaagtcttttaaattttataatgactcttcaatcgcacaattcattacataaatttgataatcttaatttagtatttgcaagaaatacactagcttttgcagatacttcactcgttttaatatcttctgctaaaaaaactaatagtattttaatcaatactattagatattttataattacctttaaattcatagtgtttttctagca Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 76 HP_score: -2.6 Tail_Score: -5.64274 Start: 26 End: 41 Full_Region: ttagatggacaccgc tttcgc ggt gcgaata tttttttataaataa .........................tttcgcggtgcgaata.......................................................................................................................................................................................................................................................................................................................... TransTerm Strand: - Conf: 82 HP_score: -7.7 Tail_Score: -4.46105 Start: 28 End: 40 Full_Region: tagatggacaccgct ttcgc ggt gcgaa tatttttttataaat ...........................ttcgcggtgcgaa........................................................................................................................................................................................................................................................................................................................... TransTerm Strand: - Conf: 45 HP_score: -3.3 Tail_Score: -3.05384 Start: 57 End: 110 Full_Region: atatagaaagtctaa cacccgcttcaacctgacattgcgg acaag ccgcaaatgcaggtcaagcgaatg ttagatggacaccgc ........................................................cacccgcttcaacctgacattgcggacaagccgcaaatgcaggtcaagcgaatg..................................................................................................................................................................................................................................................... TransTerm Strand: + Conf: 62 HP_score: -6.7 Tail_Score: -3.14528 Start: 59 End: 108 Full_Region: GGTGTCCATCTAACA TTCGCTTGACCTGCATTTGCGG CTTGT CCGCAATGTCAGGTTGAAGCGGG TGTTAGACTTTCTAT ..........................................................TTCGCTTGACCTGCATTTGCGGCTTGTCCGCAATGTCAGGTTGAAGCGGG....................................................................................................................................................................................................................................................... TransTerm Strand: + Conf: 60 HP_score: -2.6 Tail_Score: -4.56093 Start: 283 End: 316 Full_Region: TATCTTCTGCTAAAA AAACTAATAGTATT TTAATC AATACTATTAGATA TTTTATAATTACCTT ..........................................................................................................................................................................................................................................................................................AAACTAATAGTATTTTAATCAATACTATTAGATA....................................... TransTerm Strand: + Conf: 63 HP_score: -5.2 Tail_Score: -3.8823 Start: 285 End: 314 Full_Region: TCTTCTGCTAAAAAA ACTAATAGTATT TTAATC AATACTATTAGA TATTTTATAATTACC ............................................................................................................................................................................................................................................................................................ACTAATAGTATTTTAATCAATACTATTAGA......................................... TransTerm Strand: - Conf: 100 HP_score: -8.7 Tail_Score: -5.40072 Start: 286 End: 313 Full_Region: gtaattataaaatat ctaatagtatt gattaa aatactattag tttttttagcagaag .............................................................................................................................................................................................................................................................................................ctaatagtattgattaaaatactattag.......................................... Find igs database================================================ Query_seq: TDE1832:TDE1833|TDE1832:TDE1833:hypothetical protein:hypothetical protein:<-<-:1866012..1866366 355 accatacctcttatttataaaaaaatattcgcaccgcgaaagcggtgtccatctaacattcgcttgacctgcatttgcggcttgtccgcaatgtcaggttgaagcgggtgttagactttctatatacatattcttaaaactcttatgaaagtcttttaaattttataatgactcttcaatcgcacaattcattacataaatttgataatcttaatttagtatttgcaagaaatacactagcttttgcagatacttcactcgttttaatatcttctgctaaaaaaactaatagtattttaatcaatactattagatattttataattacctttaaattcatagtgtttttctagca Intra-Species Hit: Count: 3 Min: 1 Max: 355 Len: 355 Subject: NC_002967_TDE1832_TDE1833|hypothetical protein:hypothetical protein|NEGATIVE:NEGATIVE|[1866012,1866366]|355 HSP 1 e-value: 1.0E-177 bit: 620.0 Len: 355 Query Start:1 Query End:355 Subject Strand: POSITIVE Subject Start: 1 Subject End: 355 accatacctcttatttatnnnnnnntattcgcaccgcgaaagcggtgtccatctaacattcgcttgacctgcatttgcggcttgtccgcaatgtcaggttgaagcgggtgttagactttctatatacatattcttaaaactcttatgaaagtcttttaaattttataatgactcttcaatcgcacaattcattacataaatttgataatcttaatttagtatttgcaagaaatacactagcttttgcagatacttcactcgttttaatatcttctgctnnnnnnnctaatagtattttaatcaatactattagatattttataattacctttaaattcatagtgtttttctagca accatacctcttatttataaaaaaatattcgcaccgcgaaagcggtgtccatctaacattcgcttgacctgcatttgcggcttgtccgcaatgtcaggttgaagcgggtgttagactttctatatacatattcttaaaactcttatgaaagtcttttaaattttataatgactcttcaatcgcacaattcattacataaatttgataatcttaatttagtatttgcaagaaatacactagcttttgcagatacttcactcgttttaatatcttctgctaaaaaaactaatagtattttaatcaatactattagatattttataattacctttaaattcatagtgtttttctagca Subject: NC_002967_TDE1776_TDE1777|hypothetical protein:hypothetical protein|NEGATIVE:NEGATIVE|[1819323,1820045]|723 HSP 1 e-value: 1.0E-158 bit: 559.0 Len: 303 Query Start:53 Query End:355 Subject Strand: POSITIVE Subject Start: 421 Subject End: 723 ....................................................ctaacattcgcttgacctgcatttgcggcttgtccgcaatgtcaggttgaagcgggtgttagactttctatatacatattcttaaaactcttatgaaagtcttttaaattttataatgactcttcaatcgcacaattcattacataaatttgataatcttaatttagtatttgcaagaaatacactagcttttgcagatacttcactcgttttaatatcttctgctnnnnnnnctaatagtattttaatcaatactattagatattttataattacctttaaattcatagtgtttttctagca ....................................................ctaacattcgcttgacctgcatttgcggcttgtccgcaatgtcaggttgaagcgggtgttagactttctatatacatattcttaaaactcttatgaaagtcttttaaattttataatgactcttcaatcgcacaattcattacataaatttgataatcttaatttagtatttgcaagaaatacactagcttttgcagatacttcactcgttttaatatcttctgctaaaaaaactaatagtattttaatcaatactattagatattttataattacctttaaattcatagtgtttttctagca Subject: NC_002967_TDE1796_TDE1797|hypothetical protein:hypothetical protein|NEGATIVE:NEGATIVE|[1835606,1835744]|139 HSP 1 e-value: 3.0E-37 bit: 157.0 Len: 116 Query Start:1 Query End:116 Subject Strand: POSITIVE Subject Start: 1 Subject End: 115 accatacctcttatttatnnnnnnntattcgcaccgcgaaagcggtgtccatctaacattcgcttgacctgcatttgcggcttgtccgcaatgtcaggttgaagcgggtgttagac............................................................................................................................................................................................................................................... accatacctcttatttataaaaaaatattcgcaccgcgaaagcggtgtccatctaacattcgcttaacctgc-tttgcggctcgtccgcaatgtcaggttgaagcgggtgttagac............................................................................................................................................................................................................................................... Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ ACCAUACCUCUUAUUUAUAAAAAAAUAUUCGCACCGCGAAAGCGGUGUCCAUCUAACAUUCGCUUGACCUGCAUUUGCGGCUUGUCCGCAAUGUCAGGUUGAAGCGGGUGUUAGACUUUCUAUAUACAUAUUCUUAAAACUCUUAUGAAAGUCUUUUAAAUUUUAUAAUGACUCUUCAAUCGCACAAUUCAUUACAUAAAUUUGAUAAUCUUAAUUUAGUAUUUGCAAGAAAUACACUAGCUUUUGCAGAUACUUCACUCGUUUUAAUAUCUUCUGCUAAAAAAACUAAUAGUAUUUUAAUCAAUACUAUUAGAUAUUUUAUAAUUACCUUUAAAUUCAUAGUGUUUUUCUAGCA ...((((......(((((((..........(((((((....)))))))...((((((((((((((((((((((((.((((.....)))))))).)))))).))))))))))))))...........................)))))))......((((((((..((((((.................))))))...)))))))).............))))..((.(((((.((((((..(((((((((......................))))).))))...(((((((((((......)))))))))))..........................)))))).))))).)). (-92.58) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGCUAGAAAAACACUAUGAAUUUAAAGGUAAUUAUAAAAUAUCUAAUAGUAUUGAUUAAAAUACUAUUAGUUUUUUUAGCAGAAGAUAUUAAAACGAGUGAAGUAUCUGCAAAAGCUAGUGUAUUUCUUGCAAAUACUAAAUUAAGAUUAUCAAAUUUAUGUAAUGAAUUGUGCGAUUGAAGAGUCAUUAUAAAAUUUAAAAGACUUUCAUAAGAGUUUUAAGAAUAUGUAUAUAGAAAGUCUAACACCCGCUUCAACCUGACAUUGCGGACAAGCCGCAAAUGCAGGUCAAGCGAAUGUUAGAUGGACACCGCUUUCGCGGUGCGAAUAUUUUUUUAUAAAUAAGAGGUAUGGU (((.(((((.((((((..................(((((...(((((((((((......)))))))))))...)))))(((((.(.((((......))))...).)))))......)))))).))))).))).(((((..............((((((.((((((((.((.(........).))))))))))))))))..(((((((......))))))).......(((.((((((((((((((((..(((((..(((((.((((((((.....)))).))))))))).)))))..)))))))).(.((((((....))))))).......)))))))).)))...)))))... (-93.10) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 1074 110 61 176 127 NC_002967:TDE1839|5end_hypothetical_protein_1871221..1871451_NEGATIVE 1074 110 61 201 152 NC_002967:TDE1832|5end_hypothetical_protein_1865921..1866151_NEGATIVE 1074 110 61 199 150 NC_002967:TDE1820|5end_hypothetical_protein_1854692..1854922_NEGATIVE 1051 110 61 179 130 NC_002967:TDE1836|5end_hypothetical_protein_1869443..1869673_NEGATIVE 1051 110 61 216 167 NC_002967:TDE1831|5end_hypothetical_protein_1865032..1865262_NEGATIVE 1051 110 61 183 134 NC_002967:TDE1827|5end_hydrolase,_carbon-nitrogen_family_1860830..1861060_NEGATIVE 1051 110 61 197 148 NC_002967:TDE1823|5end_hypothetical_protein_1856990..1857220_NEGATIVE 1051 110 61 181 132 NC_002967:TDE1817|5end_hypothetical_protein_1852599..1852829_NEGATIVE 1051 110 61 178 129 NC_002967:TDE1811|5end_hypothetical_protein_1847483..1847713_NEGATIVE 1051 110 61 216 167 NC_002967:TDE1797|5end_hypothetical_protein_1836272..1836502_NEGATIVE 1051 110 61 169 120 NC_002967:TDE1795|5end_funZ_protein,_putative_1834673..1834903_NEGATIVE 1051 110 61 187 138 NC_002967:TDE0267|5end_HAM1_protein_299108..299338_NEGATIVE 995 110 61 200 152 NC_002967:TDE1796|5end_hypothetical_protein_1835515..1835745_NEGATIVE 974 110 61 176 127 NC_002967:TDE1822|5end_hypothetical_protein_1855922..1856152_NEGATIVE 974 110 61 230 181 NC_002967:TDE1790|5end_hypothetical_protein_1828007..1828237_NEGATIVE 970 110 61 230 181 NC_002967:TDE1813|5end_hypothetical_protein_1848249..1848479_NEGATIVE 970 110 61 186 137 NC_002967:TDE1791|5end_hypothetical_protein_1828775..1829005_NEGATIVE 959 100 52 226 178 NC_002967:TDE1799|5end_hypothetical_protein_1837264..1837494_NEGATIVE 940 110 61 178 127 NC_002967:TDE1803|5end_hypothetical_protein_1839270..1839500_NEGATIVE 857 110 61 190 140 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 1074 110 61 73 24 NC_002967:TDE1840|3end_hypothetical_protein_1871324..1871474_NEGATIVE 1074 110 61 80 31 NC_002967:TDE1836|3end_hypothetical_protein_1868514..1868664_NEGATIVE 1074 110 61 76 27 NC_002967:TDE1821|3end_hypothetical_protein_1854815..1854965_NEGATIVE 1074 110 61 76 27 NC_002967:TDE1810|3end_hypothetical_protein_1845924..1846074_NEGATIVE 1074 110 61 81 32 NC_002967:TDE1808|3end_hypothetical_protein_1844084..1844234_NEGATIVE 1074 110 61 73 24 NC_002967:TDE1800|3end_hypothetical_protein_1837427..1837577_NEGATIVE 1051 110 61 90 41 NC_002967:TDE1843|3end_hypothetical_protein_1872199..1872349_NEGATIVE 1051 110 61 80 31 NC_002967:TDE1837|3end_hypothetical_protein_1869542..1869692_NEGATIVE 1051 110 61 76 27 NC_002967:TDE1832|3end_hypothetical_protein_1865172..1865322_NEGATIVE 1051 110 61 79 30 NC_002967:TDE1828|3end_hypothetical_protein_1860934..1861084_NEGATIVE 1051 110 61 81 32 NC_002967:TDE1812|3end_hypothetical_protein_1847580..1847730_NEGATIVE 1051 110 61 76 27 NC_002967:TDE1796|3end_hypothetical_protein_1834766..1834916_NEGATIVE 1051 110 61 72 23 NC_002967:TDE1787|3end_hypothetical_protein_1826378..1826528_NEGATIVE 1051 110 61 90 41 NC_002967:TDE1780|3end_hypothetical_protein_1822183..1822333_NEGATIVE 1051 110 61 76 27 NC_002967:TDE0268|3end_hypothetical_protein_299219..299369_NEGATIVE 1032 110 61 85 36 NC_002967:TDE1806|3end_hypothetical_protein_1843190..1843340_NEGATIVE 1024 110 61 90 41 NC_002967:TDE1793|3end_hydrolase,_carbon-nitrogen_family_1829957..1830107_NEGATIVE 1023 110 61 79 30 NC_002967:TDE1776|3end_hypothetical_protein_1818414..1818564_NEGATIVE 1021 110 61 81 32 NC_002967:TDE1789|3end_hypothetical_protein_1827338..1827488_NEGATIVE 1009 110 61 74 25 NC_002967:TDE0097|3end_hypothetical_protein_114801..114951_POSITIVE