Origin IGS: tgcctttcggagcttatgcgttttataccgtaggcttctttcgtgttagtcggcggtgcagtagtacaagaatgaccccattctttaaaatggagcatttttgccgctgtaccgcttttt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aaaaagcggtacagcggcaaaaatgctccattttaaagaatggggtcattcttgtactactgcaccgccgactaacacgaaagaagcctacggtataaaacgcataagctccgaaaggca Mask Tandem Repeat Region ================================================ tgcctttcggagcttatgcgttttataccgtaggcttctttcgtgttagtcggcggtgcagtagtacaagaatgaccccattctttaaaatggagcatttttgccgctgtaccgcttttt Find is-nt database================================================ Query_seq: TDE0745:TDE0746|TDE0745:TDE0746:glycine reductase complex selenoprotein GrdA:iron compound ABC transporter, ATP-binding protein, putative:-><-:780901..781020 120 tgcctttcggagcttatgcgttttataccgtaggcttctttcgtgttagtcggcggtgcagtagtacaagaatgaccccattctttaaaatggagcatttttgccgctgtaccgcttttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TDE0745:TDE0746|TDE0745:TDE0746:glycine reductase complex selenoprotein GrdA:iron compound ABC transporter, ATP-binding protein, putative:-><-:780901..781020 120 tgcctttcggagcttatgcgttttataccgtaggcttctttcgtgttagtcggcggtgcagtagtacaagaatgaccccattctttaaaatggagcatttttgccgctgtaccgcttttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TDE0745:TDE0746|TDE0745:TDE0746:glycine reductase complex selenoprotein GrdA:iron compound ABC transporter, ATP-binding protein, putative:-><-:780901..781020 120 tgcctttcggagcttatgcgttttataccgtaggcttctttcgtgttagtcggcggtgcagtagtacaagaatgaccccattctttaaaatggagcatttttgccgctgtaccgcttttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgcctttcggagcttatgcgttttataccgtaggcttctttcgtgttagtcggcggtgcagtagtacaagaatgaccccattctttaaaatggagcatttttgccgctgtaccgcttttt Predict ORF larger than 30AA ================================================ Protein_Len: 32 Strand: - Start: 3 End: 98 .. R E S S I R K I G Y A E K T N T P P A T T C S H G W E K F H L M ...................... tgcctttcggagcttatgcgttttataccgtaggcttctttcgtgttagtcggcggtgcagtagtacaagaatgaccccattctttaaaatggagcatttttgccgctgtaccgcttttt 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================================================ tgcctttcggagcttatgcgttttataccgtaggcttctttcgtgttagtcggcggtgcagtagtacaagaatgaccccattctttaaaatggagcatttttgccgctgtaccgcttttt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TDE0745:TDE0746|TDE0745:TDE0746:glycine reductase complex selenoprotein GrdA:iron compound ABC transporter, ATP-binding protein, putative:-><-:780901..781020 120 tgcctttcggagcttatgcgttttataccgtaggcttctttcgtgttagtcggcggtgcagtagtacaagaatgaccccattctttaaaatggagcatttttgccgctgtaccgcttttt Intra-Species Hit: Count: 1 Min: 1 Max: 120 Len: 120 Subject: NC_002967_TDE0745_TDE0746|glycine reductase complex selenoprotein GrdA:iron compound ABC transporter, ATP-binding protein, putative|POSITIVE:NEGATIVE|[780901,781020]|120 HSP 1 e-value: 3.0E-62 bit: 238.0 Len: 120 Query Start:1 Query End:120 Subject Strand: POSITIVE Subject Start: 1 Subject End: 120 tgcctttcggagcttatgcgttttataccgtaggcttctttcgtgttagtcggcggtgcagtagtacaagaatgaccccattctttaaaatggagcatttttgccgctgtaccgcttttt tgcctttcggagcttatgcgttttataccgtaggcttctttcgtgttagtcggcggtgcagtagtacaagaatgaccccattctttaaaatggagcatttttgccgctgtaccgcttttt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGCCUUUCGGAGCUUAUGCGUUUUAUACCGUAGGCUUCUUUCGUGUUAGUCGGCGGUGCAGUAGUACAAGAAUGACCCCAUUCUUUAAAAUGGAGCAUUUUUGCCGCUGUACCGCUUUUU ........((((((((((.((.....)))))))))))).............((((((((((..(..((((((((.(.(((((......))))).))))))))))..)))))))))).... (-44.10) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAAAAGCGGUACAGCGGCAAAAAUGCUCCAUUUUAAAGAAUGGGGUCAUUCUUGUACUACUGCACCGCCGACUAACACGAAAGAAGCCUACGGUAUAAAACGCAUAAGCUCCGAAAGGCA .....(((((.(((..((((.((((((((((((....)))))))).)))).))))....))).))))).........(....)..((((.(((........((....)).)))..)))). (-36.60) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 382 60 14 74 25 NC_002967:TDE0158|5end_hypothetical_protein_185948..186178_NEGATIVE 361 57 11 135 85 NC_002967:TDE1999|5end_DNA_polymerase_III_domain_protein_2017063..2017293_POSITIVE 355 42 2 230 190 NC_002967:TDE1882|5end_glycosyl_hydrolase,_family_1_1903544..1903774_POSITIVE 349 50 2 67 8 NC_002967:TDE0873|5end_hypothetical_protein_896143..896373_POSITIVE 338 120 75 139 90 NC_002967:TDE1260|5end_cholinephosphate_cytidylyltransferase/choline_kinase_1294028..1294258_POSITIVE 318 59 11 46 1 NC_002967:TDE2715|5end_hypothetical_protein_2772668..2772898_POSITIVE 307 59 16 196 147 NC_002967:TDE2635|5end_acetyltransferase,_GNAT_family_2675453..2675683_POSITIVE 298 57 13 60 13 NC_002967:TDE2637|5end_hypothetical_protein_2677316..2677546_NEGATIVE 297 55 18 123 88 NC_002967:TDE1878|5end_hydrolase,_haloacid_dehalogenase-like_family_1900745..1900975_NEGATIVE 294 116 73 197 157 NC_002967:TDE2428|5end_ribosomal_protein_L33_2456292..2456522_NEGATIVE 293 77 35 183 144 NC_002967:TDE2550|5end_hypothetical_protein_2576215..2576445_NEGATIVE 291 116 73 74 30 NC_002967:TDE2586|5end_DNA_polymerase_III_subunits_gamma_and_tau_2622089..2622319_NEGATIVE 291 57 13 95 45 NC_002967:TDE2156|5end_translation_initiation_factor_IF-3_2190719..2190949_NEGATIVE 291 59 11 120 63 NC_002967:TDE1681|5end_V-type_ATP_synthase_subunit_D_1733537..1733767_NEGATIVE 291 67 27 57 18 NC_002967:TDE0792|5end_ribosomal_protein_L17_818387..818617_POSITIVE 290 58 11 190 134 NC_002967:TDE0262|5end_hypothetical_protein_296300..296530_NEGATIVE 289 60 11 179 130 NC_002967:TDE2630|5end_peptide_ABC_transporter,_permease_protein,_putative_2670879..2671109_POSITIVE 288 58 12 209 145 NC_002967:TDE1077|5end_hypothetical_protein_1108395..1108625_POSITIVE 287 46 2 75 30 NC_002967:TDE2570|5end_ribonuclease_HI_2597375..2597605_POSITIVE 286 78 32 48 7 NC_002967:TDE2269|5end_hypothetical_protein_2305920..2306150_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 381 68 25 47 1 NC_002967:TDE2663|3end_isoleucyl-tRNA_synthetase_2698616..2698766_NEGATIVE 361 57 11 135 85 NC_002967:TDE1998|3end_phosphohexose_mutase_family_protein_2017143..2017293_POSITIVE 330 57 12 71 18 NC_002967:TDE0320|3end_CBS_domain_protein_352480..352630_NEGATIVE 322 56 12 63 2 NC_002967:TDE0820|3end_transcriptional_regulator,_TetR_family_843714..843864_NEGATIVE 312 77 31 145 92 NC_002967:TDE2336|3end_sodium/dicarboxylate_symporter_family_protein_2371925..2372075_NEGATIVE 306 68 27 68 10 NC_002967:TDE2011|3end_hypothetical_protein_2033482..2033632_POSITIVE 299 50 1 86 39 NC_002967:TDE2082|3end_hypothetical_protein_2112489..2112639_NEGATIVE 294 60 18 133 84 NC_002967:TDE2739|3end_hypothetical_protein_2795169..2795319_POSITIVE 292 77 33 49 2 NC_002967:TDE2036|3end_ATPase,_AAA_family_2064140..2064290_NEGATIVE 291 59 11 109 52 NC_002967:TDE1682|3end_V-type_ATP_synthase_subunit_B_1733548..1733698_NEGATIVE 291 67 27 67 28 NC_002967:TDE0791|3end_DNA-directed_RNA_polymerase_alpha_subunit_818477..818627_POSITIVE 290 58 11 90 34 NC_002967:TDE0263|3end_spermidine_N1-acetyltransferase,_putative_296400..296550_NEGATIVE 287 46 2 78 33 NC_002967:TDE2569|3end_3-deoxy-7-phosphoheptulonate_synthase_2597458..2597608_POSITIVE 286 120 72 146 72 NC_002967:TDE1253|3end_hypothetical_protein_1288473..1288623_POSITIVE 285 54 11 72 25 NC_002967:TDE1817|3end_hypothetical_protein_1851766..1851916_NEGATIVE 284 56 12 134 88 NC_002967:TDE0823|3end_(3R)-hydroxymyristoyl-(acyl-carrier-protein)_dehydratase,_putative_845252..845402_POSITIVE 283 114 92 55 31 NC_002967:TDE0824|3end_lipoprotein,_putative_845226..845376_NEGATIVE 282 118 84 121 90 NC_002967:TDE2310|3end_hypothetical_protein_2348256..2348406_POSITIVE 278 58 12 72 27 NC_002967:TDE0280|3end_PIN_domain_protein_309895..310045_NEGATIVE 277 77 34 41 1 NC_002967:TDE0148|3end_histidine_kinase-related_ATPase,_putative_169920..170070_POSITIVE