Origin IGS: taatatagcacagcagctgcaatagacagcagtgctgtttccacctcaataattttcatgtagggacacaagcccctgtatttcctgttgcttggctcgtagatagtcagcttgaaaaacccaagggggtgtaaggaaatgtggggagttgtgtcctttttattctatcggatataagccaaaactt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aagttttggcttatatccgatagaataaaaaggacacaactccccacatttccttacacccccttgggtttttcaagctgactatctacgagccaagcaacaggaaatacaggggcttgtgtccctacatgaaaattattgaggtggaaacagcactgctgtctattgcagctgctgtgctatatta Mask Tandem Repeat Region ================================================ taatatagcacagcagctgcaatagacagcagtgctgtttccacctcaataattttcatgtagggacacaagcccctgtatttcctgttgcttggctcgtagatagtcagcttgaaaaacccaagggggtgtaaggaaatgtggggagttgtgtcctttttattctatcggatataagccaaaactt Find is-nt database================================================ Query_seq: PI0798:PI0799|PI0798:PI0799:malonyl CoA-acyl carrier protein transacylase:alpha-amylase family protein:->->:737036..737222 187 taatatagcacagcagctgcaatagacagcagtgctgtttccacctcaataattttcatgtagggacacaagcccctgtatttcctgttgcttggctcgtagatagtcagcttgaaaaacccaagggggtgtaaggaaatgtggggagttgtgtcctttttattctatcggatataagccaaaactt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0798:PI0799|PI0798:PI0799:malonyl CoA-acyl carrier protein transacylase:alpha-amylase family protein:->->:737036..737222 187 taatatagcacagcagctgcaatagacagcagtgctgtttccacctcaataattttcatgtagggacacaagcccctgtatttcctgttgcttggctcgtagatagtcagcttgaaaaacccaagggggtgtaaggaaatgtggggagttgtgtcctttttattctatcggatataagccaaaactt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0798:PI0799|PI0798:PI0799:malonyl CoA-acyl carrier protein transacylase:alpha-amylase family protein:->->:737036..737222 187 taatatagcacagcagctgcaatagacagcagtgctgtttccacctcaataattttcatgtagggacacaagcccctgtatttcctgttgcttggctcgtagatagtcagcttgaaaaacccaagggggtgtaaggaaatgtggggagttgtgtcctttttattctatcggatataagccaaaactt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taatatagcacagcagctgcaatagacagcagtgctgtttccacctcaataattttcatgtagggacacaagcccctgtatttcctgttgcttggctcgtagatagtcagcttgaaaaacccaagggggtgtaaggaaatgtggggagttgtgtcctttttattctatcggatataagccaaaactt Predict ORF larger than 30AA ================================================ Protein_Len: 46 Strand: - Start: 3 End: 140 .. Y L V A A A I S L L A T E V E I I K M Y P C L G R Y K R N S P E Y I T L K F F G L P H L S M ............................................... taatatagcacagcagctgcaatagacagcagtgctgtttccacctcaataattttcatgtagggacacaagcccctgtatttcctgttgcttggctcgtagatagtcagcttgaaaaacccaagggggtgtaaggaaatgtggggagttgtgtcctttttattctatcggatataagccaaaactt 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================================================ taatatagcacagcagctgcaatagacagcagtgctgtttccacctcaataattttcatgtagggacacaagcccctgtatttcctgttgcttggctcgtagatagtcagcttgaaaaacccaagggggtgtaaggaaatgtggggagttgtgtcctttttattctatcggatataagccaaaactt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI0798:PI0799|PI0798:PI0799:malonyl CoA-acyl carrier protein transacylase:alpha-amylase family protein:->->:737036..737222 187 taatatagcacagcagctgcaatagacagcagtgctgtttccacctcaataattttcatgtagggacacaagcccctgtatttcctgttgcttggctcgtagatagtcagcttgaaaaacccaagggggtgtaaggaaatgtggggagttgtgtcctttttattctatcggatataagccaaaactt Intra-Species Hit: Count: 1 Min: 1 Max: 187 Len: 187 Subject: pint_PI0798_PI0799|malonyl CoA-acyl carrier protein transacylase:alpha-amylase family protein|POSITIVE:POSITIVE|[737036,737222]|187 HSP 1 e-value: 1.0E-102 bit: 371.0 Len: 187 Query Start:1 Query End:187 Subject Strand: POSITIVE Subject Start: 1 Subject End: 187 taatatagcacagcagctgcaatagacagcagtgctgtttccacctcaataattttcatgtagggacacaagcccctgtatttcctgttgcttggctcgtagatagtcagcttgaaaaacccaagggggtgtaaggaaatgtggggagttgtgtcctttttattctatcggatataagccaaaactt taatatagcacagcagctgcaatagacagcagtgctgtttccacctcaataattttcatgtagggacacaagcccctgtatttcctgttgcttggctcgtagatagtcagcttgaaaaacccaagggggtgtaaggaaatgtggggagttgtgtcctttttattctatcggatataagccaaaactt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUAUAGCACAGCAGCUGCAAUAGACAGCAGUGCUGUUUCCACCUCAAUAAUUUUCAUGUAGGGACACAAGCCCCUGUAUUUCCUGUUGCUUGGCUCGUAGAUAGUCAGCUUGAAAAACCCAAGGGGGUGUAAGGAAAUGUGGGGAGUUGUGUCCUUUUUAUUCUAUCGGAUAUAAGCCAAAACUU .......((.(((((.((((........)))))))))..(((.....(((((.........((((((((((..(((..((((((((...(((.((((.......))))))).......((((....))))...))))))))..)))..)))))))))).))))).....))).....))........ (-59.80) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAGUUUUGGCUUAUAUCCGAUAGAAUAAAAAGGACACAACUCCCCACAUUUCCUUACACCCCCUUGGGUUUUUCAAGCUGACUAUCUACGAGCCAAGCAACAGGAAAUACAGGGGCUUGUGUCCCUACAUGAAAAUUAUUGAGGUGGAAACAGCACUGCUGUCUAUUGCAGCUGCUGUGCUAUAUUA ......((((...((((((((((........((((((((..((((..(((((((...((((....)))).......(((..((.......))...)))...)))))))...)))).))))))))...........)))))).))))...((((((((((........)))).))))))))))..... (-53.11) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 400 109 61 230 176 pint:PI0260|5end_conjugative_transposon_protein,_TraJ_253023..253253_POSITIVE 381 136 91 201 150 pint:PI0393|5end_conserved_hypothetical_protein_358696..358926_POSITIVE 362 49 11 41 1 pint:PI1447|5end_probable_OPT_oligopeptide_transporter_protein_1369972..1370202_POSITIVE 349 49 6 72 32 pint:PI0708|5end_conserved_hypothetical_protein_644475..644705_POSITIVE 339 129 84 211 167 pint:PI1767|5end_fructokinase,_pfkB_family_1694285..1694515_POSITIVE 338 132 91 71 29 pint:PI1232|5end_conserved_hypothetical_protein_1152757..1152987_POSITIVE 329 140 95 172 128 pint:PI1536|5end_hypothetical_protein_1455555..1455785_POSITIVE 320 110 63 183 121 pint:PI1657|5end_hypothetical_protein_1570721..1570951_POSITIVE 318 111 72 134 86 pint:PI0113|5end_arginyl-tRNA_synthetase_108371..108601_POSITIVE 315 115 72 186 137 pint:PI1230|5end_probable_metallo-beta-lactamase_family_protein_1151840..1152070_POSITIVE 311 160 112 157 112 pint:PI0161|5end_possible_TonB_receptor_153364..153594_POSITIVE 310 46 7 158 113 pint:PI0042|5end_hypothetical_protein_42981..43211_POSITIVE 310 46 7 142 97 pint:PI0044|5end_thiamine_biosynthetic_enzyme_42965..43195_POSITIVE 306 110 61 103 34 pint:PI2162|5end_conserved_hypothetical_protein_2108796..2109026_POSITIVE 295 170 125 54 18 pint:PI1797|5end_hypothetical_protein_1731147..1731377_POSITIVE 294 129 84 118 72 pint:PI1604|5end_hypothetical_protein_1534017..1534247_POSITIVE 293 44 4 225 186 pint:PI0602|5end_conserved_hypothetical_protein_549099..549329_POSITIVE 289 100 67 67 20 pint:PI2121|5end_glucose_inhibited_division_protein_A_2069889..2070119_POSITIVE 289 37 7 72 43 pint:PI1810|5end_outer_membrane_protein_1748305..1748535_POSITIVE 289 139 91 172 124 pint:PI0125|5end_undecaprenyl_pyrophosphate_synthase_117106..117336_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 345 158 114 89 46 pint:PI1820|3end_hypothetical_protein_1760377..1760527_POSITIVE 341 103 63 45 1 pint:PI0300|3end_transposase_285761..285911_POSITIVE 304 129 84 96 42 pint:PI0028|3end_aminopeptidase_32727..32877_POSITIVE 303 99 67 70 30 pint:PI1734|3end_possible_carboxyl-terminal_protease-related_protein_1653829..1653979_POSITIVE 301 50 4 74 27 pint:PI0601|3end_hypothetical_protein_549020..549170_POSITIVE 298 125 81 151 96 pint:PI0392|3end_possible_transcriptional_regulator_358735..358885_POSITIVE 293 157 128 49 20 pint:PI2088|3end_conserved_hypothetical_protein;_possible_PAP2_superfamily_protein_2045815..2045965_POSITIVE 290 149 101 116 59 pint:PI1571|3end_surface_antigen_BspA_1495780..1495930_POSITIVE 287 156 111 54 10 pint:PI1535|3end_response_regulator_1455501..1455651_POSITIVE 286 113 73 94 51 pint:PI1652|3end_hypothetical_protein_1565235..1565385_POSITIVE 280 130 85 51 2 pint:PI1715|3end_conserved_hypothetical_protein;_possible_DNA-binding_protein,_histone-like_family_1632324..1632474_POSITIVE 278 34 5 145 121 pint:PI1864|3end_chromate_transport_protein_1811009..1811159_POSITIVE 277 129 83 81 39 pint:PI1531|3end_biotin--acetyl-CoA-carboxylase_ligase_1451734..1451884_POSITIVE 277 100 53 69 11 pint:PI0335|3end_hypothetical_protein_314420..314570_POSITIVE 276 149 112 99 65 pint:PI1955|3end_N_utilization_substance_protein_A_1913058..1913208_POSITIVE 273 127 85 56 16 pint:PI0526|3end_hypothetical_protein_482439..482589_POSITIVE 272 43 6 49 6 pint:PI1148|3end_50S_ribosomal_protein_L9_1075467..1075617_POSITIVE 269 168 128 49 10 pint:PI0962|3end_phosphoglycerate_mutase_892702..892852_POSITIVE 269 99 57 123 90 pint:PI0735|3end_ABC_transporter,_ATP-binding_/_permease_670591..670741_POSITIVE 269 158 122 109 77 pint:PI0221|3end_DNA_methylase,_site-specific_DNA-methyltransferase_(adenine-specific)_217796..217946_POSITIVE