Origin IGS: tttttctccagatcctacctgtactgtacacatacattattttaaaccaaaaatgagcttgatccagttatcagcgctaaagcagatgttagacgctaatc .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 gattagcgtctaacatctgctttagcgctgataactggatcaagctcatttttggtttaaaataatgtatgtgtacagtacaggtaggatctggagaaaaa Mask Tandem Repeat Region ================================================ tttttctccagatcctacctgtactgtacacatacattattttaaaccaaaaatgagcttgatccagttatcagcgctaaagcagatgttagacgctaatc Find is-nt database================================================ Query_seq: TDE1767:TDE1768|TDE1767:TDE1768:hypothetical protein:hypothetical protein:<-<-:1813658..1813758 101 tttttctccagatcctacctgtactgtacacatacattattttaaaccaaaaatgagcttgatccagttatcagcgctaaagcagatgttagacgctaatc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TDE1767:TDE1768|TDE1767:TDE1768:hypothetical protein:hypothetical protein:<-<-:1813658..1813758 101 tttttctccagatcctacctgtactgtacacatacattattttaaaccaaaaatgagcttgatccagttatcagcgctaaagcagatgttagacgctaatc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TDE1767:TDE1768|TDE1767:TDE1768:hypothetical protein:hypothetical protein:<-<-:1813658..1813758 101 tttttctccagatcctacctgtactgtacacatacattattttaaaccaaaaatgagcttgatccagttatcagcgctaaagcagatgttagacgctaatc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tttttctccagatcctacctgtactgtacacatacattattttaaaccaaaaatgagcttgatccagttatcagcgctaaagcagatgttagacgctaatc Predict ORF larger than 30AA ================================================ tttttctccagatcctacctgtactgtacacatacattattttaaaccaaaaatgagcttgatccagttatcagcgctaaagcagatgttagacgctaatc 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================================================ tttttctccagatcctacctgtactgtacacatacattattttaaaccaaaaatgagcttgatccagttatcagcgctaaagcagatgttagacgctaatc Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TDE1767:TDE1768|TDE1767:TDE1768:hypothetical protein:hypothetical protein:<-<-:1813658..1813758 101 tttttctccagatcctacctgtactgtacacatacattattttaaaccaaaaatgagcttgatccagttatcagcgctaaagcagatgttagacgctaatc Intra-Species Hit: Count: 1 Min: 1 Max: 101 Len: 101 Subject: NC_002967_TDE1767_TDE1768|hypothetical protein:hypothetical protein|NEGATIVE:NEGATIVE|[1813658,1813758]|101 HSP 1 e-value: 6.0E-51 bit: 200.0 Len: 101 Query Start:1 Query End:101 Subject Strand: POSITIVE Subject Start: 1 Subject End: 101 tttttctccagatcctacctgtactgtacacatacattattttaaaccaaaaatgagcttgatccagttatcagcgctaaagcagatgttagacgctaatc tttttctccagatcctacctgtactgtacacatacattattttaaaccaaaaatgagcttgatccagttatcagcgctaaagcagatgttagacgctaatc Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUUUCUCCAGAUCCUACCUGUACUGUACACAUACAUUAUUUUAAACCAAAAAUGAGCUUGAUCCAGUUAUCAGCGCUAAAGCAGAUGUUAGACGCUAAUC ..........((((......(((.((....))))).(((((((......)))))))....))))........((((((((........)))).)))).... (-12.50) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GAUUAGCGUCUAACAUCUGCUUUAGCGCUGAUAACUGGAUCAAGCUCAUUUUUGGUUUAAAAUAAUGUAUGUGUACAGUACAGGUAGGAUCUGGAGAAAAA .(((((((.((((........)))))))))))..(..((((..((..(((((......)))))..(((((.......))))).))..))))..)....... (-22.40) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 897 100 51 191 142 NC_002967:TDE1767|5end_hypothetical_protein_1813567..1813797_NEGATIVE 275 97 57 193 149 NC_002967:TDE1825|5end_hypothetical_protein_1858344..1858574_NEGATIVE 273 97 57 188 149 NC_002967:TDE1836|5end_hypothetical_protein_1869443..1869673_NEGATIVE 263 95 56 63 14 NC_002967:TDE0678|5end_hypothetical_protein_716014..716244_POSITIVE 259 95 57 196 158 NC_002967:TDE0279|5end_hypothetical_protein_309782..310012_NEGATIVE 256 48 13 160 124 NC_002967:TDE2038|5end_UVR_domain_protein_2068201..2068431_NEGATIVE 256 97 56 56 3 NC_002967:TDE1143|5end_hypothetical_protein_1181834..1182064_NEGATIVE 255 98 57 186 146 NC_002967:TDE1822|5end_hypothetical_protein_1855922..1856152_NEGATIVE 250 97 60 200 144 NC_002967:TDE2622|5end_ABC_transporter,_ATP-binding_protein_2663590..2663820_NEGATIVE 245 92 57 194 159 NC_002967:TDE0262|5end_hypothetical_protein_296300..296530_NEGATIVE 238 98 57 188 147 NC_002967:TDE1803|5end_hypothetical_protein_1839270..1839500_NEGATIVE 236 98 55 188 124 NC_002967:TDE1604|5end_ABC_transporter,_permease_protein,_putative_1655533..1655763_NEGATIVE 228 48 1 127 82 NC_002967:TDE2365|5end_high-affinity_branched-chain_amino_acid_ABC_transporter,_permease_protein_2399949..2400179_NEGATIVE 228 96 55 87 54 NC_002967:TDE2280|5end_transglycosylase,_SLT_family_2317358..2317588_NEGATIVE 222 92 52 182 141 NC_002967:TDE1765|5end_hypothetical_protein_1811878..1812108_NEGATIVE 220 95 57 183 146 NC_002967:TDE1839|5end_hypothetical_protein_1871221..1871451_NEGATIVE 220 95 57 207 170 NC_002967:TDE1796|5end_hypothetical_protein_1835515..1835745_NEGATIVE 219 98 54 111 58 NC_002967:TDE2268|5end_hypothetical_protein_2304959..2305189_NEGATIVE 218 90 41 180 131 NC_002967:TDE1816|5end_hypothetical_protein_1851673..1851903_NEGATIVE 217 49 1 138 94 NC_002967:TDE2636|5end_hypothetical_protein_2676070..2676300_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 273 97 57 89 50 NC_002967:TDE1837|3end_hypothetical_protein_1869542..1869692_NEGATIVE 259 95 57 83 45 NC_002967:TDE0280|3end_PIN_domain_protein_309895..310045_NEGATIVE 254 96 57 80 42 NC_002967:TDE1787|3end_hypothetical_protein_1826378..1826528_NEGATIVE 245 92 57 94 59 NC_002967:TDE0263|3end_spermidine_N1-acetyltransferase,_putative_296400..296550_NEGATIVE 243 97 51 84 25 NC_002967:TDE2571|3end_hypothetical_protein_2597922..2598072_NEGATIVE 235 32 8 74 40 NC_002967:TDE1062|3end_ABC_transporter,_ATP-binding_protein,_HlyB_family_1090387..1090537_POSITIVE 228 48 1 117 72 NC_002967:TDE2366|3end_high-affinity_branched-chain_amino_acid_ABC_transporter,_permease_protein_2399959..2400109_NEGATIVE 222 97 55 138 104 NC_002967:TDE0186|3end_hypothetical_protein_222373..222523_NEGATIVE 221 92 57 78 44 NC_002967:TDE0097|3end_hypothetical_protein_114801..114951_POSITIVE 220 95 57 80 43 NC_002967:TDE1840|3end_hypothetical_protein_1871324..1871474_NEGATIVE 220 95 57 67 30 NC_002967:TDE1831|3end_hypothetical_protein_1864415..1864565_NEGATIVE 220 95 57 80 43 NC_002967:TDE1800|3end_hypothetical_protein_1837427..1837577_NEGATIVE 220 95 57 67 30 NC_002967:TDE1797|3end_hypothetical_protein_1835655..1835805_NEGATIVE 220 88 47 86 45 NC_002967:TDE1770|3end_hypothetical_protein_1814468..1814618_POSITIVE 220 90 54 147 99 NC_002967:TDE0109|3end_phenylalanyl-tRNA_synthetase_alpha_subunit_128833..128983_NEGATIVE 219 98 54 139 86 NC_002967:TDE2269|3end_hypothetical_protein_2304931..2305081_NEGATIVE 218 90 41 87 38 NC_002967:TDE1817|3end_hypothetical_protein_1851766..1851916_NEGATIVE 215 97 68 42 1 NC_002967:TDE1144|3end_hypothetical_protein_1181848..1181998_NEGATIVE 215 99 53 55 3 NC_002967:TDE0904|3end_hypothetical_protein_922278..922428_NEGATIVE 213 92 57 94 59 NC_002967:TDE1815|3end_hypothetical_protein_1849458..1849608_NEGATIVE