Origin IGS: atttttattattgctctgcccgcagggtcagcctaacatgcacttaaggtgcaactgggctgaagcccagttgtcagcttgaagtgcttgttagagggctgtaa .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 ttacagccctctaacaagcacttcaagctgacaactgggcttcagcccagttgcaccttaagtgcatgttaggctgaccctgcgggcagagcaataataaaaat Mask Tandem Repeat Region ================================================ atttttattattgctctgcccgcagggtcagcctaacatgcacttaaggtgcaactgggctgaagcccagttgtcagcttgaagtgcttgttagagggctgtaa Find is-nt database================================================ Query_seq: TDE1794:TDE1795|TDE1794:TDE1795:hypothetical protein:funZ protein, putative:<-<-:1833049..1833152 104 atttttattattgctctgcccgcagggtcagcctaacatgcacttaaggtgcaactgggctgaagcccagttgtcagcttgaagtgcttgttagagggctgtaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TDE1794:TDE1795|TDE1794:TDE1795:hypothetical protein:funZ protein, putative:<-<-:1833049..1833152 104 atttttattattgctctgcccgcagggtcagcctaacatgcacttaaggtgcaactgggctgaagcccagttgtcagcttgaagtgcttgttagagggctgtaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TDE1794:TDE1795|TDE1794:TDE1795:hypothetical protein:funZ protein, putative:<-<-:1833049..1833152 104 atttttattattgctctgcccgcagggtcagcctaacatgcacttaaggtgcaactgggctgaagcccagttgtcagcttgaagtgcttgttagagggctgtaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 atttttattattgctctgcccgcagggtcagcctaacatgcacttaaggtgcaactgggctgaagcccagttgtcagcttgaagtgcttgttagagggctgtaa Predict ORF larger than 30AA ================================================ atttttattattgctctgcccgcagggtcagcctaacatgcacttaaggtgcaactgggctgaagcccagttgtcagcttgaagtgcttgttagagggctgtaa 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================================================ atttttattattgctctgcccgcagggtcagcctaacatgcacttaaggtgcaactgggctgaagcccagttgtcagcttgaagtgcttgttagagggctgtaa Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 100 HP_score: -15.9 Tail_Score: -3.62224 Start: 40 End: 87 Full_Region: GGGTCAGCCTAACAT GCACTTAAGGTGCAACTGGGC TGAA GCCCAGTTGTCAGCTTGAAGTGC TTGTTAGAGGGCTGT .......................................GCACTTAAGGTGCAACTGGGCTGAAGCCCAGTTGTCAGCTTGAAGTGC................. Find igs database================================================ Query_seq: TDE1794:TDE1795|TDE1794:TDE1795:hypothetical protein:funZ protein, putative:<-<-:1833049..1833152 104 atttttattattgctctgcccgcagggtcagcctaacatgcacttaaggtgcaactgggctgaagcccagttgtcagcttgaagtgcttgttagagggctgtaa Intra-Species Hit: Count: 1 Min: 1 Max: 104 Len: 104 Subject: NC_002967_TDE1794_TDE1795|hypothetical protein:funZ protein, putative|NEGATIVE:NEGATIVE|[1833049,1833152]|104 HSP 1 e-value: 1.0E-52 bit: 206.0 Len: 104 Query Start:1 Query End:104 Subject Strand: POSITIVE Subject Start: 1 Subject End: 104 atttttattattgctctgcccgcagggtcagcctaacatgcacttaaggtgcaactgggctgaagcccagttgtcagcttgaagtgcttgttagagggctgtaa atttttattattgctctgcccgcagggtcagcctaacatgcacttaaggtgcaactgggctgaagcccagttgtcagcttgaagtgcttgttagagggctgtaa Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUUUUUAUUAUUGCUCUGCCCGCAGGGUCAGCCUAACAUGCACUUAAGGUGCAACUGGGCUGAAGCCCAGUUGUCAGCUUGAAGUGCUUGUUAGAGGGCUGUAA ............((((((....))))))((((((((((.(((((((((.(((((((((((....))))))))).)).)))).))))).))))...))))))... (-49.80) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUACAGCCCUCUAACAAGCACUUCAAGCUGACAACUGGGCUUCAGCCCAGUUGCACCUUAAGUGCAUGUUAGGCUGACCCUGCGGGCAGAGCAAUAAUAAAAAU ...(((((...(((((.((((((.(((.((.(((((((((....))))))))))).))))))))).))))))))))...(((....)))............... (-43.90) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 1088 60 11 151 102 NC_002967:TDE1794|5end_hypothetical_protein_1832958..1833188_NEGATIVE 503 60 14 148 98 NC_002967:TDE1803|5end_hypothetical_protein_1839270..1839500_NEGATIVE 407 100 51 193 141 NC_002967:TDE1825|5end_hypothetical_protein_1858344..1858574_NEGATIVE 393 60 14 152 97 NC_002967:TDE0268|5end_hypothetical_protein_300049..300279_NEGATIVE 385 60 14 147 97 NC_002967:TDE1839|5end_hypothetical_protein_1871221..1871451_NEGATIVE 352 94 51 194 150 NC_002967:TDE0262|5end_hypothetical_protein_296300..296530_NEGATIVE 341 56 12 207 154 NC_002967:TDE1463|5end_hypothetical_protein_1513072..1513302_NEGATIVE 339 52 16 44 2 NC_002967:TDE1731|5end_hypothetical_protein_1786935..1787165_NEGATIVE 338 99 55 198 149 NC_002967:TDE2268|5end_hypothetical_protein_2304959..2305189_NEGATIVE 338 100 51 188 140 NC_002967:TDE1836|5end_hypothetical_protein_1869443..1869673_NEGATIVE 338 100 51 225 177 NC_002967:TDE1831|5end_hypothetical_protein_1865032..1865262_NEGATIVE 338 100 56 188 145 NC_002967:TDE1767|5end_hypothetical_protein_1813567..1813797_NEGATIVE 335 56 13 60 6 NC_002967:TDE1033|5end_polyA_polymerase_family_protein_1061069..1061299_POSITIVE 332 100 56 119 76 NC_002967:TDE0774|5end_50S_ribosomal_protein_L16_810165..810395_POSITIVE 327 66 22 228 182 NC_002967:TDE2475|5end_MATE_efflux_family_protein_2498521..2498751_NEGATIVE 322 60 14 149 97 NC_002967:TDE1811|5end_hypothetical_protein_1847483..1847713_NEGATIVE 322 60 13 214 150 NC_002967:TDE0991|5end_ribosomal_protein_L28_1018065..1018295_NEGATIVE 317 66 21 148 107 NC_002967:TDE1816|5end_hypothetical_protein_1851673..1851903_NEGATIVE 316 66 22 194 140 NC_002967:TDE0854|5end_regulatory_protein_RecX_875813..876043_POSITIVE 312 64 21 59 23 NC_002967:TDE0836|5end_Na(+)-translocating_NADH-quinone_reductase,_C_subunit_856096..856326_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 394 100 54 102 49 NC_002967:TDE2741|3end_hypothetical_protein_2796722..2796872_POSITIVE 382 99 51 98 51 NC_002967:TDE1780|3end_hypothetical_protein_1822183..1822333_NEGATIVE 370 78 31 116 69 NC_002967:TDE0977|3end_hypothetical_protein_1001640..1001790_POSITIVE 352 94 51 94 50 NC_002967:TDE0263|3end_spermidine_N1-acetyltransferase,_putative_296400..296550_NEGATIVE 348 95 51 90 46 NC_002967:TDE1811|3end_hypothetical_protein_1846773..1846923_NEGATIVE 344 97 51 87 41 NC_002967:TDE1836|3end_hypothetical_protein_1868514..1868664_NEGATIVE 338 100 51 89 41 NC_002967:TDE1837|3end_hypothetical_protein_1869542..1869692_NEGATIVE 338 100 51 85 37 NC_002967:TDE1832|3end_hypothetical_protein_1865172..1865322_NEGATIVE 338 100 51 85 37 NC_002967:TDE1796|3end_hypothetical_protein_1834766..1834916_NEGATIVE 338 100 56 86 43 NC_002967:TDE1768|3end_hypothetical_protein_1813669..1813819_NEGATIVE 332 100 56 116 73 NC_002967:TDE0773|3end_30S_ribosomal_protein_S3_810242..810392_POSITIVE 329 100 51 89 39 NC_002967:TDE1771|3end_hypothetical_protein_1814579..1814729_NEGATIVE 326 68 25 100 44 NC_002967:TDE1755|3end_hypothetical_protein_1807187..1807337_POSITIVE 325 60 14 119 51 NC_002967:TDE0333|3end_MATE_efflux_family_protein_373083..373233_POSITIVE 322 60 15 52 3 NC_002967:TDE2321|3end_hypothetical_protein_2356948..2357098_NEGATIVE 319 99 51 89 42 NC_002967:TDE1808|3end_hypothetical_protein_1844084..1844234_NEGATIVE 319 99 51 80 33 NC_002967:TDE1787|3end_hypothetical_protein_1826378..1826528_NEGATIVE 317 66 21 55 14 NC_002967:TDE1817|3end_hypothetical_protein_1851766..1851916_NEGATIVE 315 65 24 79 29 NC_002967:TDE2752|3end_hypothetical_protein_2809470..2809620_POSITIVE 315 60 20 44 2 NC_002967:TDE1840|3end_hypothetical_protein_1871324..1871474_NEGATIVE