Origin IGS: tagaaaagtgatttggttgtgggttgtttaattcaaaagtaaattattatttttaatatcttattaaaatacatcaggaacataccgcacttttctgagtgcttttatccataattgatttt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aaaatcaattatggataaaagcactcagaaaagtgcggtatgttcctgatgtattttaataagatattaaaaataataatttacttttgaattaaacaacccacaaccaaatcacttttcta Mask Tandem Repeat Region ================================================ tagaaaagtgatttggttgtgggttgtttaattcaaaagtaaattattatttttaatatcttattaaaatacatcaggaacataccgcacttttctgagtgcttttatccataattgatttt Find is-nt database================================================ Query_seq: AA01689:AA01690|AA01689:AA01690:conserved hypothetical protein (possible inner membrane protein):penicillin-binding protein 1C:->->:1146726..1146847 122 tagaaaagtgatttggttgtgggttgtttaattcaaaagtaaattattatttttaatatcttattaaaatacatcaggaacataccgcacttttctgagtgcttttatccataattgatttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA01689:AA01690|AA01689:AA01690:conserved hypothetical protein (possible inner membrane protein):penicillin-binding protein 1C:->->:1146726..1146847 122 tagaaaagtgatttggttgtgggttgtttaattcaaaagtaaattattatttttaatatcttattaaaatacatcaggaacataccgcacttttctgagtgcttttatccataattgatttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA01689:AA01690|AA01689:AA01690:conserved hypothetical protein (possible inner membrane protein):penicillin-binding protein 1C:->->:1146726..1146847 122 tagaaaagtgatttggttgtgggttgtttaattcaaaagtaaattattatttttaatatcttattaaaatacatcaggaacataccgcacttttctgagtgcttttatccataattgatttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tagaaaagtgatttggttgtgggttgtttaattcaaaagtaaattattatttttaatatcttattaaaatacatcaggaacataccgcacttttctgagtgcttttatccataattgatttt Predict ORF larger than 30AA ================================================ tagaaaagtgatttggttgtgggttgtttaattcaaaagtaaattattatttttaatatcttattaaaatacatcaggaacataccgcacttttctgagtgcttttatccataattgatttt 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================================================ tagaaaagtgatttggttgtgggttgtttaattcaaaagtaaattattatttttaatatcttattaaaatacatcaggaacataccgcacttttctgagtgcttttatccataattgatttt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA01689:AA01690|AA01689:AA01690:conserved hypothetical protein (possible inner membrane protein):penicillin-binding protein 1C:->->:1146726..1146847 122 tagaaaagtgatttggttgtgggttgtttaattcaaaagtaaattattatttttaatatcttattaaaatacatcaggaacataccgcacttttctgagtgcttttatccataattgatttt Intra-Species Hit: Count: 1 Min: 1 Max: 122 Len: 122 Subject: aact_AA01689_AA01690|conserved hypothetical protein (possible inner membrane protein):penicillin-binding protein 1C|POSITIVE:POSITIVE|[1146726,1146847]|122 HSP 1 e-value: 2.0E-63 bit: 242.0 Len: 122 Query Start:1 Query End:122 Subject Strand: POSITIVE Subject Start: 1 Subject End: 122 tagaaaagtgatttggttgtgggttgtttaattcaaaagtaaattattatttttaatatcttattaaaatacatcaggaacataccgcacttttctgagtgcttttatccataattgatttt tagaaaagtgatttggttgtgggttgtttaattcaaaagtaaattattatttttaatatcttattaaaatacatcaggaacataccgcacttttctgagtgcttttatccataattgatttt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGAAAAGUGAUUUGGUUGUGGGUUGUUUAAUUCAAAAGUAAAUUAUUAUUUUUAAUAUCUUAUUAAAAUACAUCAGGAACAUACCGCACUUUUCUGAGUGCUUUUAUCCAUAAUUGAUUUU ............(..((((((((((((((........(((((..(((((....)))))..)))))............)))))....((((((....))))))....)))))))))..).... (-22.95) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAAAUCAAUUAUGGAUAAAAGCACUCAGAAAAGUGCGGUAUGUUCCUGAUGUAUUUUAAUAAGAUAUUAAAAAUAAUAAUUUACUUUUGAAUUAAACAACCCACAACCAAAUCACUUUUCUA ..........................(((((((((.(((.(((..........((((((((...))))))))....(((((((....)))))))........))))))....))))))))). (-16.40) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 371 102 61 138 88 aact:AA00686|5end_hypothetical_protein_468852..469082_POSITIVE 311 103 66 62 27 aact:AA00697|5end_hypothetical_protein_476999..477229_POSITIVE 302 116 72 87 38 aact:AA02091|5end_hypothetical_protein_1424441..1424671_POSITIVE 301 105 66 202 166 aact:AA00268|5end_acyl_carrier_protein_(ACP)_188104..188334_POSITIVE 301 105 66 51 15 aact:AA00267|5end_hypothetical_protein_187953..188183_POSITIVE 301 103 66 176 135 aact:AA00239|5end_hypothetical_protein_171213..171443_POSITIVE 298 110 66 58 11 aact:AA01660|5end_hypothetical_protein_1125035..1125265_POSITIVE 293 102 61 132 85 aact:AA00508|5end_SAM-dependent_methyltransferase_353096..353326_POSITIVE 291 100 55 185 145 aact:AA00561|5end_DNA_transformation_protein_384584..384814_POSITIVE 286 101 72 96 67 aact:AA01159|5end_phosphatase_792828..793058_POSITIVE 284 97 71 158 130 aact:AA00660|5end_hypothetical_protein_453031..453261_POSITIVE 280 102 66 43 12 aact:AA01140|5end_anaerobic_dimethyl_sulfoxide_reductase,_chain_C_781610..781840_POSITIVE 278 101 63 45 7 aact:AA01041|5end_hypothetical_protein_724853..725083_POSITIVE 277 103 66 131 95 aact:AA01078|5end_transcriptional_regulator_(probable_MerR_family)_746873..747103_POSITIVE 274 103 64 129 91 aact:AA00987|5end_tetracenomycin_polyketide_synthesis_O-methyltransferase_689745..689975_POSITIVE 274 110 66 86 33 aact:AA00570|5end_hypothetical_protein_391613..391843_POSITIVE 272 104 74 154 119 aact:AA02410|5end_cell_division_protein_1655429..1655659_POSITIVE 263 99 66 82 50 aact:AA02123|5end_hypothetical_protein_1448244..1448474_POSITIVE 262 108 65 146 92 aact:AA01936|5end_tyrosyl-tRNA_synthetase_1307043..1307273_POSITIVE 260 102 64 148 102 aact:AA00454|5end_conserved_hypothetical_protein_318020..318250_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 371 102 61 67 17 aact:AA00684|3end_adenylosuccinate_synthase_468861..469011_POSITIVE 311 103 66 89 54 aact:AA00696|3end_iron(III)_ABC_transporter,_periplasmic_iron-compound-binding_protein_477106..477256_POSITIVE 302 116 72 115 66 aact:AA02090|3end_glucose-1-phosphate_adenylyltransferase_1424549..1424699_POSITIVE 301 103 66 52 11 aact:AA00237|3end_hypothetical_protein_171169..171319_POSITIVE 297 102 71 67 37 aact:AA01945|3end_selenophosphate_synthase_1316022..1316172_POSITIVE 291 100 55 112 72 aact:AA00560|3end_RNA_polymerase_sigma-32_factor_384591..384741_POSITIVE 286 101 72 80 51 aact:AA01158|3end_ribosome_associated_heat_shock_protein_15_homolog_792892..793042_POSITIVE 284 97 71 74 46 aact:AA00659|3end_heat_shock_protein_453027..453177_POSITIVE 281 118 76 112 65 aact:AA01423|3end_cell_division_protein_X,_ABC_system_permease_957680..957830_POSITIVE 280 102 66 38 7 aact:AA01138|3end_anaerobic_dimethyl_sulfoxide_reductase,_chain_B_781685..781835_POSITIVE 278 101 63 58 20 aact:AA01040|3end_possible_lipoprotein_724946..725096_POSITIVE 277 103 66 48 12 aact:AA01077|3end_transposase_746870..747020_POSITIVE 274 103 64 45 7 aact:AA00985|3end_transcriptional_regulator_(LysR_family)_689741..689891_POSITIVE 272 104 74 49 14 aact:AA02409|3end_DNA_ligase_1655404..1655554_POSITIVE 260 102 64 45 1 aact:AA00506|3end_ATP-dependent_RNA_helicase_protein_353089..353239_POSITIVE 260 102 64 57 11 aact:AA00453|3end_phosphoglyceromutase_318009..318159_POSITIVE 259 93 61 144 110 aact:AA00507|3end_hypothetical_protein_353201..353351_POSITIVE 255 112 71 117 63 aact:AA00513|3end_pseudouridylate_synthase_(pseudouridine_synthase)_355686..355836_POSITIVE 253 102 76 123 97 aact:AA01727|3end_conserved_hypothetical_protein_(possible_HipA_protein)_1168420..1168570_POSITIVE 252 102 66 94 59 aact:AA01434|3end_conserved_hypothetical_protein_(possible_o-antigen_ligase)_963021..963171_POSITIVE