Origin IGS: aacaaaataaacctaacacccgcttcaacctgacattgaggacaagctttgttgcggcttaagcgaatgttatgtggacaaccctcactggggcgcgtgtagcaggaaaaa .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tttttcctgctacacgcgccccagtgagggttgtccacataacattcgcttaagccgcaacaaagcttgtcctcaatgtcaggttgaagcgggtgttaggtttattttgtt Mask Tandem Repeat Region ================================================ aacaaaataaacctaacacccgcttcaacctgacattgaggacaagctttgttgcggcttaagcgaatgttatgtggacaaccctcactggggcgcgtgtagcaggaaaaa Find is-nt database================================================ Query_seq: TDE0671:TDE0672|TDE0671:TDE0672:PIN domain protein:hypothetical protein:->->:711139..711249 111 aacaaaataaacctaacacccgcttcaacctgacattgaggacaagctttgttgcggcttaagcgaatgttatgtggacaaccctcactggggcgcgtgtagcaggaaaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TDE0671:TDE0672|TDE0671:TDE0672:PIN domain protein:hypothetical protein:->->:711139..711249 111 aacaaaataaacctaacacccgcttcaacctgacattgaggacaagctttgttgcggcttaagcgaatgttatgtggacaaccctcactggggcgcgtgtagcaggaaaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TDE0671:TDE0672|TDE0671:TDE0672:PIN domain protein:hypothetical protein:->->:711139..711249 111 aacaaaataaacctaacacccgcttcaacctgacattgaggacaagctttgttgcggcttaagcgaatgttatgtggacaaccctcactggggcgcgtgtagcaggaaaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aacaaaataaacctaacacccgcttcaacctgacattgaggacaagctttgttgcggcttaagcgaatgttatgtggacaaccctcactggggcgcgtgtagcaggaaaaa Predict ORF larger than 30AA ================================================ aacaaaataaacctaacacccgcttcaacctgacattgaggacaagctttgttgcggcttaagcgaatgttatgtggacaaccctcactggggcgcgtgtagcaggaaaaa 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================================================ aacaaaataaacctaacacccgcttcaacctgacattgaggacaagctttgttgcggcttaagcgaatgttatgtggacaaccctcactggggcgcgtgtagcaggaaaaa Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TDE0671:TDE0672|TDE0671:TDE0672:PIN domain protein:hypothetical protein:->->:711139..711249 111 aacaaaataaacctaacacccgcttcaacctgacattgaggacaagctttgttgcggcttaagcgaatgttatgtggacaaccctcactggggcgcgtgtagcaggaaaaa Intra-Species Hit: Count: 1 Min: 1 Max: 111 Len: 111 Subject: NC_002967_TDE0671_TDE0672|PIN domain protein:hypothetical protein|POSITIVE:POSITIVE|[711139,711249]|111 HSP 1 e-value: 7.0E-57 bit: 220.0 Len: 111 Query Start:1 Query End:111 Subject Strand: POSITIVE Subject Start: 1 Subject End: 111 aacaaaataaacctaacacccgcttcaacctgacattgaggacaagctttgttgcggcttaagcgaatgttatgtggacaaccctcactggggcgcgtgtagcaggaaaaa aacaaaataaacctaacacccgcttcaacctgacattgaggacaagctttgttgcggcttaagcgaatgttatgtggacaaccctcactggggcgcgtgtagcaggaaaaa Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AACAAAAUAAACCUAACACCCGCUUCAACCUGACAUUGAGGACAAGCUUUGUUGCGGCUUAAGCGAAUGUUAUGUGGACAACCCUCACUGGGGCGCGUGUAGCAGGAAAAA ...........(((.((((.(((((((.........(((((....((((.((....))..))))...((((.....))))..))))).))))))).))))...)))..... (-25.70) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUUUCCUGCUACACGCGCCCCAGUGAGGGUUGUCCACAUAACAUUCGCUUAAGCCGCAACAAAGCUUGUCCUCAAUGUCAGGUUGAAGCGGGUGUUAGGUUUAUUUUGUU ...............(((.(((.....))).)))..((.((((((((((((.((((...(((....(((....))))))..)))).)))))))))))).)).......... (-26.30) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 649 57 13 97 52 NC_002967:TDE1824|5end_hypothetical_protein_1857011..1857241_POSITIVE 364 57 11 225 174 NC_002967:TDE1897|5end_phosphoribosylglycinamide_formyltransferase_1918109..1918339_NEGATIVE 364 57 12 170 118 NC_002967:TDE0268|5end_hypothetical_protein_300049..300279_NEGATIVE 353 58 13 167 123 NC_002967:TDE1825|5end_hypothetical_protein_1858344..1858574_NEGATIVE 351 80 39 186 144 NC_002967:TDE1765|5end_hypothetical_protein_1811878..1812108_NEGATIVE 345 70 21 191 140 NC_002967:TDE0262|5end_hypothetical_protein_296300..296530_NEGATIVE 343 58 12 170 123 NC_002967:TDE1781|5end_hypothetical_protein_1823260..1823490_NEGATIVE 341 108 62 208 174 NC_002967:TDE1343|5end_trypsin_domain/PDZ_domain_protein_1380546..1380776_POSITIVE 334 70 22 160 111 NC_002967:TDE1839|5end_hypothetical_protein_1871221..1871451_NEGATIVE 325 97 51 200 145 NC_002967:TDE0589|5end_acetyl-CoA_carboxylase,_carboxyl_transferase,_alpha_subunit_629044..629274_NEGATIVE 321 99 52 73 18 NC_002967:TDE0473|5end_heavy_metal_translocating_P-type_ATPase_528621..528851_POSITIVE 320 68 21 170 134 NC_002967:TDE1793|5end_hydrolase,_carbon-nitrogen_family_1830844..1831074_NEGATIVE 317 99 52 92 48 NC_002967:TDE2209|5end_CarB_family_protein_2247589..2247819_POSITIVE 317 58 13 176 131 NC_002967:TDE0279|5end_hypothetical_protein_309782..310012_NEGATIVE 310 99 56 191 148 NC_002967:TDE2103|5end_glycosyl_transferase,_group_2_family_protein_2128393..2128623_NEGATIVE 308 60 19 51 17 NC_002967:TDE0675|5end_hypothetical_protein_713994..714224_POSITIVE 307 95 56 180 142 NC_002967:TDE0711|5end_hypothetical_protein_746181..746411_NEGATIVE 306 65 21 141 95 NC_002967:TDE2268|5end_hypothetical_protein_2304959..2305189_NEGATIVE 302 49 10 150 116 NC_002967:TDE1803|5end_hypothetical_protein_1839270..1839500_NEGATIVE 299 100 51 70 12 NC_002967:TDE2586|5end_DNA_polymerase_III_subunits_gamma_and_tau_2622089..2622319_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 551 57 11 78 31 NC_002967:TDE0098|3end_hypothetical_protein_114842..114992_NEGATIVE 413 92 53 122 85 NC_002967:TDE1770|3end_hypothetical_protein_1814468..1814618_POSITIVE 356 43 4 78 25 NC_002967:TDE2760|3end_flagellar_biosynthesis_protein_2815066..2815216_NEGATIVE 348 70 22 65 14 NC_002967:TDE1808|3end_hypothetical_protein_1844084..1844234_NEGATIVE 345 70 21 91 40 NC_002967:TDE0263|3end_spermidine_N1-acetyltransferase,_putative_296400..296550_NEGATIVE 343 58 12 126 79 NC_002967:TDE1782|3end_hypothetical_protein_1823304..1823454_NEGATIVE 341 108 62 143 109 NC_002967:TDE1342|3end_hypothetical_protein_1380561..1380711_POSITIVE 340 107 62 85 36 NC_002967:TDE2621|3end_hypothetical_protein_2662197..2662347_POSITIVE 334 70 22 57 8 NC_002967:TDE1840|3end_hypothetical_protein_1871324..1871474_NEGATIVE 321 60 14 72 26 NC_002967:TDE1767|3end_hypothetical_protein_1812926..1813076_NEGATIVE 318 60 12 73 19 NC_002967:TDE1323|3end_hypothetical_protein_1360968..1361118_POSITIVE 317 58 13 63 18 NC_002967:TDE0280|3end_PIN_domain_protein_309895..310045_NEGATIVE 315 73 47 94 66 NC_002967:TDE2741|3end_hypothetical_protein_2796722..2796872_POSITIVE 312 57 13 73 22 NC_002967:TDE1839|3end_hypothetical_protein_1870391..1870541_NEGATIVE 310 99 56 59 16 NC_002967:TDE2104|3end_hypothetical_protein_2128525..2128675_NEGATIVE 308 60 19 54 20 NC_002967:TDE0674|3end_hypothetical_protein_714077..714227_POSITIVE 308 59 20 73 36 NC_002967:TDE0340|3end_fructose-bisphosphate_aldolase_379606..379756_POSITIVE 299 60 12 60 10 NC_002967:TDE2162|3end_NOL1/NOP2/sun_family_protein_2195560..2195710_POSITIVE 297 97 54 123 67 NC_002967:TDE2622|3end_ABC_transporter,_ATP-binding_protein_2662178..2662328_NEGATIVE 296 90 49 39 6 NC_002967:TDE1719|3end_transcriptional_regulator,_MarR_family_1774546..1774696_POSITIVE