Origin IGS: aggtaaacaaaattatgcagaaacccatgtggagcgaagcatctgaaaagagcgttcgggcgcttttgccgttcttggaaattcttctacctttgcggtttcatacagacagagtaataaggggag .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 ctccccttattactctgtctgtatgaaaccgcaaaggtagaagaatttccaagaacggcaaaagcgcccgaacgctcttttcagatgcttcgctccacatgggtttctgcataattttgtttacct Mask Tandem Repeat Region ================================================ aggtaaacaaaattatgcagaaacccatgtggagcgaagcatctgaaaagagcgttcgggcgcttttgccgttcttggaaattcttctacctttgcggtttcatacagacagagtaataaggggag Find is-nt database================================================ Query_seq: TF1655:TF1656|TF1655:TF1656:long-chain-fatty-acid-CoA ligase:possible 2-methylthioadenine synthetase:->->:1771129..1771254 126 aggtaaacaaaattatgcagaaacccatgtggagcgaagcatctgaaaagagcgttcgggcgcttttgccgttcttggaaattcttctacctttgcggtttcatacagacagagtaataaggggag Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF1655:TF1656|TF1655:TF1656:long-chain-fatty-acid-CoA ligase:possible 2-methylthioadenine synthetase:->->:1771129..1771254 126 aggtaaacaaaattatgcagaaacccatgtggagcgaagcatctgaaaagagcgttcgggcgcttttgccgttcttggaaattcttctacctttgcggtttcatacagacagagtaataaggggag Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF1655:TF1656|TF1655:TF1656:long-chain-fatty-acid-CoA ligase:possible 2-methylthioadenine synthetase:->->:1771129..1771254 126 aggtaaacaaaattatgcagaaacccatgtggagcgaagcatctgaaaagagcgttcgggcgcttttgccgttcttggaaattcttctacctttgcggtttcatacagacagagtaataaggggag Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aggtaaacaaaattatgcagaaacccatgtggagcgaagcatctgaaaagagcgttcgggcgcttttgccgttcttggaaattcttctacctttgcggtttcatacagacagagtaataaggggag Predict ORF larger than 30AA ================================================ Protein_Len: 38 Strand: + Start: 12 End: 125 ........... M M Q K P M W S E A S E K S V R A L L P F L E I L L P L R F H T D R V I R G . Protein_Len: 31 Strand: - Start: 16 End: 108 ............... A S V W T S R L M Q F S R E P A K A T R P F E E V K A T E Y M .................. aggtaaacaaaattatgcagaaacccatgtggagcgaagcatctgaaaagagcgttcgggcgcttttgccgttcttggaaattcttctacctttgcggtttcatacagacagagtaataaggggag 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================================================ aggtaaacaaaattatgcagaaacccatgtggagcgaagcatctgaaaagagcgttcgggcgcttttgccgttcttggaaattcttctacctttgcggtttcatacagacagagtaataaggggag Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF1655:TF1656|TF1655:TF1656:long-chain-fatty-acid-CoA ligase:possible 2-methylthioadenine synthetase:->->:1771129..1771254 126 aggtaaacaaaattatgcagaaacccatgtggagcgaagcatctgaaaagagcgttcgggcgcttttgccgttcttggaaattcttctacctttgcggtttcatacagacagagtaataaggggag Intra-Species Hit: Count: 1 Min: 1 Max: 126 Len: 126 Subject: tfor_TF1655_TF1656|long-chain-fatty-acid-CoA ligase:possible 2-methylthioadenine synthetase|POSITIVE:POSITIVE|[1771129,1771254]|126 HSP 1 e-value: 9.0E-66 bit: 250.0 Len: 126 Query Start:1 Query End:126 Subject Strand: POSITIVE Subject Start: 1 Subject End: 126 aggtaaacaaaattatgcagaaacccatgtggagcgaagcatctgaaaagagcgttcgggcgcttttgccgttcttggaaattcttctacctttgcggtttcatacagacagagtaataaggggag aggtaaacaaaattatgcagaaacccatgtggagcgaagcatctgaaaagagcgttcgggcgcttttgccgttcttggaaattcttctacctttgcggtttcatacagacagagtaataaggggag Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGGUAAACAAAAUUAUGCAGAAACCCAUGUGGAGCGAAGCAUCUGAAAAGAGCGUUCGGGCGCUUUUGCCGUUCUUGGAAAUUCUUCUACCUUUGCGGUUUCAUACAGACAGAGUAAUAAGGGGAG ...................((((((((.((((((.(((.........((((((((....)))))))).(((....)))...)))))))))...)).))))))........................ (-26.40) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CUCCCCUUAUUACUCUGUCUGUAUGAAACCGCAAAGGUAGAAGAAUUUCCAAGAACGGCAAAAGCGCCCGAACGCUCUUUUCAGAUGCUUCGCUCCACAUGGGUUUCUGCAUAAUUUUGUUUACCU ...................((((.((((((.((..((..((((.((((..((((.((((......))).....).))))...)))).))))...))...))))))))))))............... (-21.90) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 394 76 34 74 33 tfor:TF0632|5end_hypothetical_protein_667652..667882_POSITIVE 385 70 28 218 176 tfor:TF0009|5end_transcriptional_regulator_3491..3721_POSITIVE 382 99 51 181 113 tfor:TF1488|5end_conserved_hypothetical_protein_1588464..1588694_POSITIVE 380 74 31 53 9 tfor:TF1275|5end_transcription-repair_coupling_factor_1357866..1358096_POSITIVE 371 68 23 190 141 tfor:TF2004|5end_thymidylate_synthase_2156372..2156602_POSITIVE 371 78 35 185 132 tfor:TF1785|5end_histidine_ammonia-lyase_1924494..1924724_POSITIVE 367 62 24 113 65 tfor:TF1339|5end_aspartate_1-decarboxylase_1420908..1421138_POSITIVE 365 60 18 225 194 tfor:TF2172|5end_hypothetical_protein_2345822..2346052_POSITIVE 365 60 18 219 188 tfor:TF2173|5end_hypothetical_protein_2345816..2346046_POSITIVE 358 78 31 124 80 tfor:TF2837|5end_conserved_hypothetical_protein_3027939..3028169_POSITIVE 358 73 33 130 93 tfor:TF0142|5end_subtilisin-like_serine_proteinase_149740..149970_POSITIVE 356 69 24 138 97 tfor:TF1327|5end_L-fucose_permease_1405790..1406020_POSITIVE 356 78 31 160 108 tfor:TF0215|5end_tRNA/rRNA_methyltransferase,_TrmH_family_241463..241693_POSITIVE 355 67 27 52 6 tfor:TF0431|5end_hypothetical_protein_452178..452408_POSITIVE 354 77 33 70 8 tfor:TF3109|5end_hypothetical_protein_3341998..3342228_POSITIVE 351 99 52 176 124 tfor:TF2492|5end_NifU-related_protein_2666683..2666913_POSITIVE 350 76 31 61 13 tfor:TF2337|5end_conserved_hypothetical_protein_2497997..2498227_POSITIVE 346 100 53 84 24 tfor:TF2561|5end_50S_ribosomal_protein_L16_2738693..2738923_POSITIVE 346 80 31 181 117 tfor:TF0280|5end_hypothetical_protein_308807..309037_POSITIVE 343 69 25 115 68 tfor:TF1735|5end_dehydrogenase,_possible_NADH-dependent_dehydrogenase_1860127..1860357_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 409 70 24 88 28 tfor:TF0958|3end_conserved_hypothetical_protein_1004909..1005059_POSITIVE 373 69 24 91 51 tfor:TF2342|3end_glutathione_peroxidase_2506639..2506789_POSITIVE 365 60 18 115 84 tfor:TF2171|3end_hypothetical_protein_2345792..2345942_POSITIVE 360 95 51 149 91 tfor:TF1487|3end_orotate_phosphoribosyltransferase_1588522..1588672_POSITIVE 358 78 31 133 89 tfor:TF2836|3end_methyltransferase_3028028..3028178_POSITIVE 358 78 31 80 30 tfor:TF1167|3end_hypothetical_protein_1248932..1249082_POSITIVE 358 73 33 140 103 tfor:TF0141|3end_exodeoxyribonuclease_VII,_large_subunit_149830..149980_POSITIVE 356 69 24 138 97 tfor:TF1325|3end_L-fucose_isomerase_1405870..1406020_POSITIVE 355 98 51 96 27 tfor:TF1655|3end_long-chain-fatty-acid-CoA_ligase_1771068..1771218_POSITIVE 352 99 52 92 50 tfor:TF2640|3end_hypothetical_protein_2809533..2809683_POSITIVE 350 76 31 143 95 tfor:TF2336|3end_conserved_hypothetical_protein_2498159..2498309_POSITIVE 340 70 27 68 11 tfor:TF2922|3end_surface_antigen_BspA_3121538..3121688_POSITIVE 340 60 18 37 6 tfor:TF1762|3end_hypothetical_protein_1899648..1899798_POSITIVE 339 71 31 44 7 tfor:TF1160|3end_MutT/nudix_family_protein_1241008..1241158_POSITIVE 336 90 50 42 6 tfor:TF0143|3end_aspartate--ammonia_ligase_152501..152651_POSITIVE 334 100 53 55 11 tfor:TF2694|3end_hypothetical_protein_2870863..2871013_POSITIVE 333 80 31 75 35 tfor:TF0062|3end_conserved_hypothetical_protein_66180..66330_POSITIVE 332 80 32 61 1 tfor:TF2225|3end_CTn_excision_protein_2395602..2395752_POSITIVE 330 100 58 116 75 tfor:TF2044|3end_excinuclease_ABC,_subunit_A_2206163..2206313_POSITIVE 329 63 21 66 13 tfor:TF2215|3end_conserved_hypothetical_protein_2388249..2388399_POSITIVE