Origin IGS: tgataggtttcgcctcatttgaacttttcacatgaaattttgttctaacgagaacatttattgtatattttgttacctaaaagtgcggtgctttttcaccgtgttttttcattcatcagaaaaggaagaaaaa .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tttttcttccttttctgatgaatgaaaaaacacggtgaaaaagcaccgcacttttaggtaacaaaatatacaataaatgttctcgttagaacaaaatttcatgtgaaaagttcaaatgaggcgaaacctatca Mask Tandem Repeat Region ================================================ tgataggtttcgcctcatttgaacttttcacatgaaattttgttctaacgagaacatttattgtatattttgttacctaaaagtgcggtgctttttcaccgtgttttttcattcatcagaaaaggaagaaaaa Find is-nt database================================================ Query_seq: AA01212:AA01213|AA01212:AA01213:hypothetical protein:competence related protein:->->:829874..830006 133 tgataggtttcgcctcatttgaacttttcacatgaaattttgttctaacgagaacatttattgtatattttgttacctaaaagtgcggtgctttttcaccgtgttttttcattcatcagaaaaggaagaaaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA01212:AA01213|AA01212:AA01213:hypothetical protein:competence related protein:->->:829874..830006 133 tgataggtttcgcctcatttgaacttttcacatgaaattttgttctaacgagaacatttattgtatattttgttacctaaaagtgcggtgctttttcaccgtgttttttcattcatcagaaaaggaagaaaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA01212:AA01213|AA01212:AA01213:hypothetical protein:competence related protein:->->:829874..830006 133 tgataggtttcgcctcatttgaacttttcacatgaaattttgttctaacgagaacatttattgtatattttgttacctaaaagtgcggtgctttttcaccgtgttttttcattcatcagaaaaggaagaaaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgataggtttcgcctcatttgaacttttcacatgaaattttgttctaacgagaacatttattgtatattttgttacctaaaagtgcggtgctttttcaccgtgttttttcattcatcagaaaaggaagaaaaa Predict ORF larger than 30AA ================================================ Protein_Len: 34 Strand: + Start: 32 End: 133 ............................... M K F C S N E N I Y C I F C Y L K V R C F F T V F F H S S E K E E K tgataggtttcgcctcatttgaacttttcacatgaaattttgttctaacgagaacatttattgtatattttgttacctaaaagtgcggtgctttttcaccgtgttttttcattcatcagaaaaggaagaaaaa 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================================================ tgataggtttcgcctcatttgaacttttcacatgaaattttgttctaacgagaacatttattgtatattttgttacctaaaagtgcggtgctttttcaccgtgttttttcattcatcagaaaaggaagaaaaa Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 72 HP_score: -3.5 Tail_Score: -5.30155 Start: 84 End: 103 Full_Region: TTTGTTACCTAAAAG TGCGGTG CTTTTT CACCGTG TTTTTTCATTCATCA ...................................................................................TGCGGTGCTTTTTCACCGTG.............................. TransTerm Strand: + Conf: 70 HP_score: -6.1 Tail_Score: -4.27681 Start: 86 End: 101 Full_Region: TGTTACCTAAAAGTG CGGTG CTTTTT CACCG TGTTTTTTCATTCAT .....................................................................................CGGTGCTTTTTCACCG................................ Find igs database================================================ Query_seq: AA01212:AA01213|AA01212:AA01213:hypothetical protein:competence related protein:->->:829874..830006 133 tgataggtttcgcctcatttgaacttttcacatgaaattttgttctaacgagaacatttattgtatattttgttacctaaaagtgcggtgctttttcaccgtgttttttcattcatcagaaaaggaagaaaaa Intra-Species Hit: Count: 1 Min: 1 Max: 133 Len: 133 Subject: aact_AA01212_AA01213|hypothetical protein:competence related protein|POSITIVE:POSITIVE|[829874,830006]|133 HSP 1 e-value: 7.0E-70 bit: 264.0 Len: 133 Query Start:1 Query End:133 Subject Strand: POSITIVE Subject Start: 1 Subject End: 133 tgataggtttcgcctcatttgaacttttcacatgaaattttgttctaacgagaacatttattgtatattttgttacctaaaagtgcggtgctttttcaccgtgttttttcattcatcagaaaaggaagaaaaa tgataggtttcgcctcatttgaacttttcacatgaaattttgttctaacgagaacatttattgtatattttgttacctaaaagtgcggtgctttttcaccgtgttttttcattcatcagaaaaggaagaaaaa Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAUAGGUUUCGCCUCAUUUGAACUUUUCACAUGAAAUUUUGUUCUAACGAGAACAUUUAUUGUAUAUUUUGUUACCUAAAAGUGCGGUGCUUUUUCACCGUGUUUUUUCAUUCAUCAGAAAAGGAAGAAAAA ....(((.....)))..(((...((((((..(((((....((((((....))))))......................(((((..(((((......)))))..)))))...)))))..))))))...)))... (-27.90) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUUUCUUCCUUUUCUGAUGAAUGAAAAAACACGGUGAAAAAGCACCGCACUUUUAGGUAACAAAAUAUACAAUAAAUGUUCUCGUUAGAACAAAAUUUCAUGUGAAAAGUUCAAAUGAGGCGAAACCUAUCA (((((((((.((....)).))).))))))...(((((......)))))......(((((..........(((.....)))(((((((.((((....((((....)))).)))).)))))))....)))))... (-24.40) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 421 108 76 122 90 aact:AA00198|5end_conserved_hypothetical_protein_(Cytosine_deaminase-related_enzyme)_138039..138269_POSITIVE 415 117 79 96 58 aact:AA01338|5end_hypothetical_protein_904967..905197_POSITIVE 355 125 83 99 42 aact:AA01773|5end_hypothetical_protein_1194877..1195107_POSITIVE 354 108 61 111 63 aact:AA02832|5end_outer_membrane_integrity_protein_1990044..1990274_POSITIVE 347 109 78 160 129 aact:AA00691|5end_conserved_hypothetical_protein_(possible_multidrug/sugar_efflux_transporter)_472038..472268_POSITIVE 346 107 81 189 163 aact:AA01401|5end_3-deoxy-D-manno-octulosonic-acid_transferase_946165..946395_POSITIVE 342 119 71 140 95 aact:AA02134|5end_aminopeptidase_N_1456181..1456411_POSITIVE 338 110 70 166 125 aact:AA00987|5end_tetracenomycin_polyketide_synthesis_O-methyltransferase_689745..689975_POSITIVE 337 113 73 138 96 aact:AA01918|5end_anaerobic_C4-dicarboxylate_transporter_1290931..1291161_POSITIVE 333 130 81 159 108 aact:AA02215|5end_conserved_hypothetical_protein_1508800..1509030_POSITIVE 332 125 81 149 104 aact:AA01954|5end_excinuclease_ABC,_subunit_C_1320468..1320698_POSITIVE 327 108 67 137 94 aact:AA00410|5end_peptide_deformylase_(PDF)_(Polypeptide_deformylase)_274633..274863_POSITIVE 325 109 61 84 38 aact:AA00139|5end_antibiotic_maturation_factor_99098..99328_POSITIVE 324 127 81 112 72 aact:AA00065|5end_hypothetical_protein_48854..49084_POSITIVE 322 109 68 224 184 aact:AA02212|5end_ribonucleoside-diphosphate_reductase_beta_chain_1506012..1506242_POSITIVE 319 118 79 138 102 aact:AA01933|5end_hypothetical_protein_1306060..1306290_POSITIVE 318 124 81 84 34 aact:AA01890|5end_cell-cycle_protein_1274544..1274774_POSITIVE 317 109 79 131 101 aact:AA02288|5end_conserved_hypothetical_protein_1558590..1558820_POSITIVE 316 130 81 52 4 aact:AA00598|5end_hypothetical_protein_408080..408310_POSITIVE 310 119 86 162 127 aact:AA00641|5end_cell_division_inhibitor_439391..439621_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 415 117 79 80 42 aact:AA01337|3end_cell_division_protein_N_905031..905181_POSITIVE 355 125 83 84 27 aact:AA01772|3end_shikimate_5-dehydrogenase_protein_1194942..1195092_POSITIVE 354 108 61 73 25 aact:AA02830|3end_colicin_tolerance_protein_1990086..1990236_POSITIVE 347 109 78 84 53 aact:AA00689|3end_GTP-binding_protein_472042..472192_POSITIVE 342 119 71 64 19 aact:AA02132|3end_dihydroorotate_dehydrogenase_1456185..1456335_POSITIVE 338 110 70 82 41 aact:AA00985|3end_transcriptional_regulator_(LysR_family)_689741..689891_POSITIVE 337 113 73 123 81 aact:AA01917|3end_hypothetical_protein_1290996..1291146_POSITIVE 327 108 67 68 25 aact:AA00409|3end_methionyl-tRNA_formyltransferase_274644..274794_POSITIVE 325 109 61 47 1 aact:AA00138|3end_hypothetical_protein_99141..99291_POSITIVE 324 127 81 124 84 aact:AA00064|3end_ribosomal_small_subunit_pseudouridine_synthase_48946..49096_POSITIVE 322 109 68 88 48 aact:AA02210|3end_ribonucleoside-diphosphate_reductase_alpha_chain_1505956..1506106_POSITIVE 319 118 79 90 54 aact:AA01932|3end_tRNA_pseudouridine_synthase_B_1306092..1306242_POSITIVE 316 130 81 49 1 aact:AA00596|3end_uridylate_kinase_408157..408307_POSITIVE 310 119 86 134 99 aact:AA00639|3end_conserved_hypothetical_protein_439443..439593_POSITIVE 310 119 86 133 98 aact:AA00640|3end_hypothetical_protein_439442..439592_POSITIVE 309 120 71 58 10 aact:AA02462|3end_thiol_peroxidase_(scavengase)_1702673..1702823_POSITIVE 309 124 82 50 1 aact:AA01889|3end_conserved_hypothetical_protein_(possible_permease)_1274590..1274740_POSITIVE 305 116 79 71 33 aact:AA01939|3end_NAD(P)_transhydrogenase_subunit_beta_1312540..1312690_POSITIVE 305 120 76 50 5 aact:AA01207|3end_hypothetical_protein_826463..826613_POSITIVE 304 108 61 116 66 aact:AA02052|3end_probable_exodeoxyribonuclease_VII_small_subunit_1398909..1399059_POSITIVE