Origin IGS: aatttttgatcggtatcaggcgttgggatgcaagtttccctctcccccgattttttgtttgccgggtacggacgcatatttcccaatattcggcagagcagacaatgaaaaaaacagtatctttgtcgt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 acgacaaagatactgtttttttcattgtctgctctgccgaatattgggaaatatgcgtccgtacccggcaaacaaaaaatcgggggagagggaaacttgcatcccaacgcctgataccgatcaaaaatt Mask Tandem Repeat Region ================================================ aatttttgatcggtatcaggcgttgggatgcaagtttccctctcccccgattttttgtttgccgggtacggacgcatatttcccaatattcggcagagcagacaatgaaaaaaacagtatctttgtcgt Find is-nt database================================================ Query_seq: TF2793:TF2794|TF2793:TF2794:possible L-lysine 2,3-aminomutase:possible transcriptional regulator:->->:2979949..2980077 129 aatttttgatcggtatcaggcgttgggatgcaagtttccctctcccccgattttttgtttgccgggtacggacgcatatttcccaatattcggcagagcagacaatgaaaaaaacagtatctttgtcgt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF2793:TF2794|TF2793:TF2794:possible L-lysine 2,3-aminomutase:possible transcriptional regulator:->->:2979949..2980077 129 aatttttgatcggtatcaggcgttgggatgcaagtttccctctcccccgattttttgtttgccgggtacggacgcatatttcccaatattcggcagagcagacaatgaaaaaaacagtatctttgtcgt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF2793:TF2794|TF2793:TF2794:possible L-lysine 2,3-aminomutase:possible transcriptional regulator:->->:2979949..2980077 129 aatttttgatcggtatcaggcgttgggatgcaagtttccctctcccccgattttttgtttgccgggtacggacgcatatttcccaatattcggcagagcagacaatgaaaaaaacagtatctttgtcgt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aatttttgatcggtatcaggcgttgggatgcaagtttccctctcccccgattttttgtttgccgggtacggacgcatatttcccaatattcggcagagcagacaatgaaaaaaacagtatctttgtcgt Predict ORF larger than 30AA ================================================ Protein_Len: 42 Strand: + Start: 2 End: 127 . M F D R Y Q A L G C K F P S P P I F C L P G T D A Y F P I F G R A D N E K N S I F V .. Protein_Len: 41 Strand: + Start: 6 End: 128 ..... M I G I R R W D A S F P L P R F F V C R V R T H I S Q Y S A E Q T M K K T V S L S . Protein_Len: 34 Strand: - Start: 19 End: 120 .................. A N P H L N G E G G I K Q K G P V S A Y K G I N P L A S L S F F L M ......... Protein_Len: 33 Strand: - Start: 3 End: 101 .. K Q D T D P T P I C T E R E G S K K N A P Y P R M N G L I R C L M ............................ Protein_Len: 35 Strand: - Start: 2 End: 106 . N K I P I L R Q S A L K G R G R N K T Q R T R V C I E W Y E A S C V M ....................... aatttttgatcggtatcaggcgttgggatgcaagtttccctctcccccgattttttgtttgccgggtacggacgcatatttcccaatattcggcagagcagacaatgaaaaaaacagtatctttgtcgt 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================================================ aatttttgatcggtatcaggcgttgggatgcaagtttccctctcccccgattttttgtttgccgggtacggacgcatatttcccaatattcggcagagcagacaatgaaaaaaacagtatctttgtcgt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF2793:TF2794|TF2793:TF2794:possible L-lysine 2,3-aminomutase:possible transcriptional regulator:->->:2979949..2980077 129 aatttttgatcggtatcaggcgttgggatgcaagtttccctctcccccgattttttgtttgccgggtacggacgcatatttcccaatattcggcagagcagacaatgaaaaaaacagtatctttgtcgt Intra-Species Hit: Count: 1 Min: 1 Max: 129 Len: 129 Subject: tfor_TF2793_TF2794|possible L-lysine 2,3-aminomutase:possible transcriptional regulator|POSITIVE:POSITIVE|[2979949,2980077]|129 HSP 1 e-value: 5.0E-55 bit: 214.0 Len: 129 Query Start:1 Query End:129 Subject Strand: POSITIVE Subject Start: 1 Subject End: 129 aatttttgatcggtatcaggcgttgggatgcaagtttccctctcccccgattttttgtttgccgggtacggacgcatatttcccaatattcggcagagcagacaatgnnnnnnncagtatctttgtcgt aatttttgatcggtatcaggcgttgggatgcaagtttccctctcccccgattttttgtttgccgggtacggacgcatatttcccaatattcggcagagcagacaatgaaaaaaacagtatctttgtcgt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAUUUUUGAUCGGUAUCAGGCGUUGGGAUGCAAGUUUCCCUCUCCCCCGAUUUUUUGUUUGCCGGGUACGGACGCAUAUUUCCCAAUAUUCGGCAGAGCAGACAAUGAAAAAAACAGUAUCUUUGUCGU .......((((((.....((.(..((((........)))).).)).)))))).....(((((((((((.(((........)))...)))))))))))...(((((.((...........)).))))).. (-32.60) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ ACGACAAAGAUACUGUUUUUUUCAUUGUCUGCUCUGCCGAAUAUUGGGAAAUAUGCGUCCGUACCCGGCAAACAAAAAAUCGGGGGAGAGGGAAACUUGCAUCCCAACGCCUGAUACCGAUCAAAAAUU ..(((((.((...........)).))))).....(((((..(((..(((........))))))..)))))........((((((.(...((((........))))..).)))))).............. (-28.60) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 383 74 35 165 136 tfor:TF0352|5end_transposase_element_371223..371453_POSITIVE 381 104 63 216 161 tfor:TF2274|5end_conserved_hypothetical_protein_2436652..2436882_POSITIVE 368 52 11 203 147 tfor:TF2371|5end_conserved_hypothetical_protein_2536974..2537204_POSITIVE 365 68 21 134 75 tfor:TF2246|5end_hypothetical_protein_2421288..2421518_POSITIVE 364 108 61 75 30 tfor:TF0248|5end_hypothetical_protein_278249..278479_POSITIVE 356 70 26 112 62 tfor:TF1773|5end_hypothetical_protein_1910939..1911169_POSITIVE 354 76 39 231 194 tfor:TF3065|5end_enolase_3291055..3291285_POSITIVE 354 109 61 70 33 tfor:TF2773|5end_S-adenosylmethionine_tRNA_ribosyltransferase_2958117..2958347_POSITIVE 354 67 25 113 74 tfor:TF2681|5end_conserved_hypothetical_protein_2855796..2856026_POSITIVE 352 56 18 138 107 tfor:TF1470|5end_phosphohydrolase,_Icc_family_1563144..1563374_POSITIVE 346 60 11 115 61 tfor:TF1010|5end_penicillin_binding_protein_2_1064795..1065025_POSITIVE 342 78 37 221 187 tfor:TF2560|5end_30S_ribosomal_protein_S3_2737897..2738127_POSITIVE 341 48 1 122 71 tfor:TF0340|5end_hypothetical_protein_363893..364123_POSITIVE 338 48 11 198 162 tfor:TF0685|5end_hypothetical_protein_730852..731082_POSITIVE 335 42 4 156 120 tfor:TF1422|5end_GLCNAC_transferase_(UDP-N-acetylglucosamine-N-acetylmuramyl-(pentapeptide)-pyr_ophosphoryl-undecaprenol_N-acetylglucosamine_transferase)_1504841..1505071_POSITIVE 333 78 31 87 41 tfor:TF2159|5end_conserved_hypothetical_protein_2334446..2334676_POSITIVE 330 105 65 39 2 tfor:TF2237|5end_two-component_system_response_regulator_involved_in_CTn_2412494..2412724_POSITIVE 329 89 43 103 60 tfor:TF2231|5end_DNA_methylase,_site-specific_DNA-methyltransferase_(adenine-specific)_2400307..2400537_POSITIVE 327 100 61 62 29 tfor:TF2853|5end_2-C-methyl-D-erythritol_2,4-cyclodiphosphate_synthase_3040172..3040402_POSITIVE 325 87 45 102 59 tfor:TF2396|5end_dimethyladenosine_transferase_2567725..2567955_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 383 74 35 88 59 tfor:TF0351|3end_hypothetical_protein_371226..371376_POSITIVE 367 77 39 81 43 tfor:TF3064|3end_oxidoreductase,_aldo/keto_reductase_family_3290984..3291134_POSITIVE 364 108 61 94 49 tfor:TF0247|3end_conserved_hypothetical_protein_278348..278498_POSITIVE 362 68 23 57 4 tfor:TF2245|3end_conserved_hypothetical_protein_2421291..2421441_POSITIVE 361 49 18 60 28 tfor:TF1762|3end_hypothetical_protein_1899648..1899798_POSITIVE 354 109 61 52 15 tfor:TF2772|3end_tRNA_pseudouridine_synthase_B_2958179..2958329_POSITIVE 349 86 46 46 1 tfor:TF2996|3end_hypothetical_protein_3211121..3211271_POSITIVE 346 105 61 43 2 tfor:TF2236|3end_two-component_system_histidine_kinase_involved_in_CTn_2412578..2412728_POSITIVE 346 107 61 93 43 tfor:TF1761|3end_hypothetical_protein_1899579..1899729_POSITIVE 346 60 11 125 71 tfor:TF1009|3end_conserved_hypothetical_protein;_posible_rod-shape_determining_protein,_MreD_1064885..1065035_POSITIVE 341 65 23 149 105 tfor:TF0179|3end_pyrophosphate-energized_proton_pump_190691..190841_POSITIVE 333 78 31 145 99 tfor:TF2158|3end_conserved_hypothetical_protein_2334584..2334734_POSITIVE 329 89 43 110 67 tfor:TF2230|3end_CTn_excision_protein_2400394..2400544_POSITIVE 328 100 55 149 92 tfor:TF1576|3end_hypothetical_protein_1686135..1686285_POSITIVE 319 48 1 57 6 tfor:TF1588|3end_hypothetical_protein_1702560..1702710_POSITIVE 311 49 10 39 7 tfor:TF2263|3end_transfer_region-related_protein,_TraN_2432964..2433114_POSITIVE 311 99 51 146 94 tfor:TF1801|3end_conserved_hypothetical_protein;_possible_TPR-repeat-containing_protein_1945669..1945819_POSITIVE 308 76 31 88 47 tfor:TF0010|3end_conserved_hypothetical_protein_4790..4940_POSITIVE 307 104 61 69 11 tfor:TF0276|3end_hypothetical_protein_300982..301132_POSITIVE 305 84 41 138 98 tfor:TF1544|3end_possible_transcriptional_regulator_1651214..1651364_POSITIVE