Origin IGS: taaacatacggtcgtccgtcacagaaaaaccgggcttatgttcggtttttttgtgccctgccgtttccgttttcaaaatatatcgtacatttgtctatcataaaaaaaagacacc .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 ggtgtcttttttttatgatagacaaatgtacgatatattttgaaaacggaaacggcagggcacaaaaaaaccgaacataagcccggtttttctgtgacggacgaccgtatgttta Mask Tandem Repeat Region ================================================ taaacatacggtcgtccgtcacagaaaaaccgggcttatgttcggtttttttgtgccctgccgtttccgttttcaaaatatatcgtacatttgtctatcataaaaaaaagacacc Find is-nt database================================================ Query_seq: TF0967:TF0968|TF0967:TF0968:alpha glycan phosphorylase:hypothetical protein:->->:1018933..1019047 115 taaacatacggtcgtccgtcacagaaaaaccgggcttatgttcggtttttttgtgccctgccgtttccgttttcaaaatatatcgtacatttgtctatcataaaaaaaagacacc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF0967:TF0968|TF0967:TF0968:alpha glycan phosphorylase:hypothetical protein:->->:1018933..1019047 115 taaacatacggtcgtccgtcacagaaaaaccgggcttatgttcggtttttttgtgccctgccgtttccgttttcaaaatatatcgtacatttgtctatcataaaaaaaagacacc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF0967:TF0968|TF0967:TF0968:alpha glycan phosphorylase:hypothetical protein:->->:1018933..1019047 115 taaacatacggtcgtccgtcacagaaaaaccgggcttatgttcggtttttttgtgccctgccgtttccgttttcaaaatatatcgtacatttgtctatcataaaaaaaagacacc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taaacatacggtcgtccgtcacagaaaaaccgggcttatgttcggtttttttgtgccctgccgtttccgttttcaaaatatatcgtacatttgtctatcataaaaaaaagacacc Predict ORF larger than 30AA ================================================ Protein_Len: 36 Strand: + Start: 6 End: 113 ..... M R S S V T E K P G L C S V F L C P A V S V F K I Y R T F V Y H K K K T .. taaacatacggtcgtccgtcacagaaaaaccgggcttatgttcggtttttttgtgccctgccgtttccgttttcaaaatatatcgtacatttgtctatcataaaaaaaagacacc 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================================================ taaacatacggtcgtccgtcacagaaaaaccgggcttatgttcggtttttttgtgccctgccgtttccgttttcaaaatatatcgtacatttgtctatcataaaaaaaagacacc Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF0967:TF0968|TF0967:TF0968:alpha glycan phosphorylase:hypothetical protein:->->:1018933..1019047 115 taaacatacggtcgtccgtcacagaaaaaccgggcttatgttcggtttttttgtgccctgccgtttccgttttcaaaatatatcgtacatttgtctatcataaaaaaaagacacc Intra-Species Hit: Count: 1 Min: 1 Max: 101 Len: 101 Subject: tfor_TF0967_TF0968|alpha glycan phosphorylase:hypothetical protein|POSITIVE:POSITIVE|[1018933,1019047]|115 HSP 1 e-value: 2.0E-38 bit: 159.0 Len: 101 Query Start:1 Query End:101 Subject Strand: POSITIVE Subject Start: 1 Subject End: 101 taaacatacggtcgtccgtcacagaaaaaccgggcttatgttcggnnnnnnngtgccctgccgtttccgttttcaaaatatatcgtacatttgtctatcat.............. taaacatacggtcgtccgtcacagaaaaaccgggcttatgttcggtttttttgtgccctgccgtttccgttttcaaaatatatcgtacatttgtctatcat.............. Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAACAUACGGUCGUCCGUCACAGAAAAACCGGGCUUAUGUUCGGUUUUUUUGUGCCCUGCCGUUUCCGUUUUCAAAAUAUAUCGUACAUUUGUCUAUCAU .((((..(((((.(...(.((((((((((((((((....))))))))))))))))).).)))))....))))............................. (-27.70) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUGAUAGACAAAUGUACGAUAUAUUUUGAAAACGGAAACGGCAGGGCACAAAAAAACCGAACAUAAGCCCGGUUUUUCUGUGACGGACGACCGUAUGUUUA .........(((((((((......((((....((....)).)))).((((.((((((((..........)))))))).)))).........))))))))). (-24.60) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 370 60 14 59 9 tfor:TF1729|5end_aspartokinase_1853310..1853540_POSITIVE 365 70 30 150 101 tfor:TF2407|5end_glycosyltransferase_2581574..2581804_POSITIVE 358 70 30 52 9 tfor:TF2184|5end_conserved_hypothetical_protein_2355578..2355808_POSITIVE 350 59 12 88 27 tfor:TF2385|5end_conserved_hypothetical_protein;_possible_MazG_family_protein_2550676..2550906_POSITIVE 345 57 15 69 23 tfor:TF1263|5end_DNA-mismatch_repair_protein_1348664..1348894_POSITIVE 336 70 31 198 159 tfor:TF1845|5end_hypothetical_protein_1996620..1996850_POSITIVE 336 70 31 198 159 tfor:TF1185|5end_hypothetical_protein_1269238..1269468_POSITIVE 335 75 31 203 142 tfor:TF2113|5end_phosphoribosylaminoimidazole_carboxylase_2282503..2282733_POSITIVE 331 47 6 85 42 tfor:TF2738|5end_30S_ribosomal_protein_S16_2919303..2919533_POSITIVE 329 59 14 75 22 tfor:TF2657|5end_conserved_hypothetical_protein_2829729..2829959_POSITIVE 327 47 9 58 25 tfor:TF0910|5end_Tn5520-like_integrase_(transfer_factor)_952499..952729_POSITIVE 327 69 29 219 166 tfor:TF0234|5end_5,10-methylenetetrahydrofolate_reductase_260482..260712_POSITIVE 326 69 22 182 119 tfor:TF2723|5end_30S_ribosomal_protein_S20_2897689..2897919_POSITIVE 326 70 21 150 87 tfor:TF2475|5end_GTP_pyrophosphokinase,_(p)ppGpp_synthetase_2651925..2652155_POSITIVE 325 47 9 77 44 tfor:TF3114|5end_hypothetical_protein_3349134..3349364_POSITIVE 325 47 9 57 24 tfor:TF3113|5end_hypothetical_protein_3349114..3349344_POSITIVE 324 69 31 68 28 tfor:TF2665|5end_hypothetical_protein_2841973..2842203_POSITIVE 318 68 31 65 19 tfor:TF2010|5end_hypothetical_protein_2163246..2163476_POSITIVE 318 85 42 214 167 tfor:TF1914|5end_conserved_hypothetical_protein_2066599..2066829_POSITIVE 317 43 2 55 7 tfor:TF2205|5end_conserved_hypothetical_protein;_possible_transcriptional_regulator_2379055..2379285_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 400 70 21 83 37 tfor:TF0967|3end_alpha_glycan_phosphorylase_1018872..1019022_POSITIVE 369 44 9 44 4 tfor:TF1262|3end_PDZ_domain_protein_1348831..1348981_POSITIVE 350 59 12 88 27 tfor:TF2384|3end_thiol:disulfide_interchange_protein_2550756..2550906_POSITIVE 336 70 31 147 108 tfor:TF2745|3end_hypothetical_protein_2927947..2928097_POSITIVE 329 59 14 88 35 tfor:TF2656|3end_valyl-tRNA_synthetase_2829822..2829972_POSITIVE 328 69 21 146 71 tfor:TF0196|3end_conserved_hypothetical_protein_221037..221187_POSITIVE 319 74 31 118 81 tfor:TF2816|3end_hypothetical_protein_3007184..3007334_POSITIVE 317 70 21 149 92 tfor:TF2473|3end_poly(A)_polymerase/tRNA_nucleotidyltransferase_2652010..2652160_POSITIVE 317 45 2 60 12 tfor:TF0692|3end_conserved_hypothetical_protein_736992..737142_POSITIVE 314 47 6 44 1 tfor:TF2646|3end_conserved_hypothetical_protein_2816697..2816847_POSITIVE 310 70 29 63 13 tfor:TF0776|3end_ABC_transporter,_permease_component_826173..826323_POSITIVE 308 68 30 151 101 tfor:TF2133|3end_aspartate-semialdehyde_dehydrogenase_2311362..2311512_POSITIVE 308 70 21 123 68 tfor:TF1832|3end_3-isopropylmalate_dehydratase,_small_subunit_1981502..1981652_POSITIVE 306 77 37 57 12 tfor:TF1771|3end_prolipoprotein_diacylglyceryl_transferase_1910607..1910757_POSITIVE 306 69 32 53 1 tfor:TF1173|3end_ABC_transporter,_permease_component_1256651..1256801_POSITIVE 303 69 30 148 106 tfor:TF2406|3end_anti-sigma_factor_2581659..2581809_POSITIVE 301 73 31 82 27 tfor:TF2260|3end_transfer_region-related_protein,_TraL_2430592..2430742_POSITIVE 300 71 31 114 75 tfor:TF0223|3end_conserved_hypothetical_protein_250310..250460_POSITIVE 298 86 41 64 17 tfor:TF2659|3end_conserved_hypothetical_protein_2833055..2833205_POSITIVE 298 70 30 76 22 tfor:TF0010|3end_conserved_hypothetical_protein_4790..4940_POSITIVE