Origin IGS: taattgaccaccacatcaagaaaagcacagaatccgcgccgaatctgttggataacgcgtggatttttattcgatacaagaaaagtgcggtggttttttccggtgtttttcacattgaaaaacgttctgaaaattgaccgcactttatcatcatttccttcaactcgaacgagggttttattgcta .........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 tagcaataaaaccctcgttcgagttgaaggaaatgatgataaagtgcggtcaattttcagaacgtttttcaatgtgaaaaacaccggaaaaaaccaccgcacttttcttgtatcgaataaaaatccacgcgttatccaacagattcggcgcggattctgtgcttttcttgatgtggtggtcaatta Mask Tandem Repeat Region ================================================ taattgaccaccacatcaagaaaagcacagaatccgcgccgaatctgttggataacgcgtggatttttattcgatacaagaaaagtgcggtggttttttccggtgtttttcacattgaaaaacgttctgaaaattgaccgcactttatcatcatttccttcaactcgaacgagggttttattgcta Find is-nt database================================================ Query_seq: AA01467:AA01471|AA01467:AA01471:mannose-specific phosphotransferase system IID:type I restriction enzyme M (modification chain):->->:987275..987460 186 taattgaccaccacatcaagaaaagcacagaatccgcgccgaatctgttggataacgcgtggatttttattcgatacaagaaaagtgcggtggttttttccggtgtttttcacattgaaaaacgttctgaaaattgaccgcactttatcatcatttccttcaactcgaacgagggttttattgcta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA01467:AA01471|AA01467:AA01471:mannose-specific phosphotransferase system IID:type I restriction enzyme M (modification chain):->->:987275..987460 186 taattgaccaccacatcaagaaaagcacagaatccgcgccgaatctgttggataacgcgtggatttttattcgatacaagaaaagtgcggtggttttttccggtgtttttcacattgaaaaacgttctgaaaattgaccgcactttatcatcatttccttcaactcgaacgagggttttattgcta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA01467:AA01471|AA01467:AA01471:mannose-specific phosphotransferase system IID:type I restriction enzyme M (modification chain):->->:987275..987460 186 taattgaccaccacatcaagaaaagcacagaatccgcgccgaatctgttggataacgcgtggatttttattcgatacaagaaaagtgcggtggttttttccggtgtttttcacattgaaaaacgttctgaaaattgaccgcactttatcatcatttccttcaactcgaacgagggttttattgcta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taattgaccaccacatcaagaaaagcacagaatccgcgccgaatctgttggataacgcgtggatttttattcgatacaagaaaagtgcggtggttttttccggtgtttttcacattgaaaaacgttctgaaaattgaccgcactttatcatcatttccttcaactcgaacgagggttttattgcta Predict ORF larger than 30AA ================================================ Protein_Len: 44 Strand: + Start: 3 End: 134 .. M D H H I K K S T E S A P N L L D N A W I F I R Y K K S A V V F S G V F H I E K R S E N .................................................... Protein_Len: 60 Strand: + Start: 4 End: 186 ... M T T T S R K A Q N P R R I C W I T R G F L F D T R K V R W F F P V F F T L K N V L K I D R T L S S F P S T R T R V L L Protein_Len: 47 Strand: - Start: 3 End: 143 .. N V V V D L F A C F G R R I Q Q I V R P N K N S V L F T R H N K G T N K V N F F T R F I S R M ........................................... taattgaccaccacatcaagaaaagcacagaatccgcgccgaatctgttggataacgcgtggatttttattcgatacaagaaaagtgcggtggttttttccggtgtttttcacattgaaaaacgttctgaaaattgaccgcactttatcatcatttccttcaactcgaacgagggttttattgcta 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================================================ taattgaccaccacatcaagaaaagcacagaatccgcgccgaatctgttggataacgcgtggatttttattcgatacaagaaaagtgcggtggttttttccggtgtttttcacattgaaaaacgttctgaaaattgaccgcactttatcatcatttccttcaactcgaacgagggttttattgcta Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 75 HP_score: -5.6 Tail_Score: -4.76075 Start: 25 End: 39 Full_Region: tatccaacagattcg gcgcgg att ctgtgc ttttcttgatgtggt ........................gcgcggattctgtgc................................................................................................................................................... Find igs database================================================ Query_seq: AA01467:AA01471|AA01467:AA01471:mannose-specific phosphotransferase system IID:type I restriction enzyme M (modification chain):->->:987275..987460 186 taattgaccaccacatcaagaaaagcacagaatccgcgccgaatctgttggataacgcgtggatttttattcgatacaagaaaagtgcggtggttttttccggtgtttttcacattgaaaaacgttctgaaaattgaccgcactttatcatcatttccttcaactcgaacgagggttttattgcta Intra-Species Hit: Count: 1 Min: 1 Max: 186 Len: 186 Subject: aact_AA01467_AA01471|mannose-specific phosphotransferase system IID:type I restriction enzyme M (modification chain)|POSITIVE:POSITIVE|[987275,987460]|186 HSP 1 e-value: 1.0E-101 bit: 369.0 Len: 186 Query Start:1 Query End:186 Subject Strand: POSITIVE Subject Start: 1 Subject End: 186 taattgaccaccacatcaagaaaagcacagaatccgcgccgaatctgttggataacgcgtggatttttattcgatacaagaaaagtgcggtggttttttccggtgtttttcacattgaaaaacgttctgaaaattgaccgcactttatcatcatttccttcaactcgaacgagggttttattgcta taattgaccaccacatcaagaaaagcacagaatccgcgccgaatctgttggataacgcgtggatttttattcgatacaagaaaagtgcggtggttttttccggtgtttttcacattgaaaaacgttctgaaaattgaccgcactttatcatcatttccttcaactcgaacgagggttttattgcta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUUGACCACCACAUCAAGAAAAGCACAGAAUCCGCGCCGAAUCUGUUGGAUAACGCGUGGAUUUUUAUUCGAUACAAGAAAAGUGCGGUGGUUUUUUCCGGUGUUUUUCACAUUGAAAAACGUUCUGAAAAUUGACCGCACUUUAUCAUCAUUUCCUUCAACUCGAACGAGGGUUUUAUUGCUA ...((((........))))....((((.(((((((((((...(((.....)))...)))))))))))............(((((((((((((((((((.....((((((((.....))))))))....))))))).)))))))))).)).......(((((.........)))))......)))). (-50.10) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGCAAUAAAACCCUCGUUCGAGUUGAAGGAAAUGAUGAUAAAGUGCGGUCAAUUUUCAGAACGUUUUUCAAUGUGAAAAACACCGGAAAAAACCACCGCACUUUUCUUGUAUCGAAUAAAAAUCCACGCGUUAUCCAACAGAUUCGGCGCGGAUUCUGUGCUUUUCUUGAUGUGGUGGUCAAUUA ..........(((((...(((((..((((.(..(((((..((((((((((...(((((.....(((((((.....)))))))....)))))....)))))))))).....)))))......(((((.(((...(((.....)))...))).)))))...).)))).)))))...)).)))...... (-47.70) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 606 130 82 154 103 aact:AA01918|5end_anaerobic_C4-dicarboxylate_transporter_1290931..1291161_POSITIVE 488 110 64 154 107 aact:AA01824|5end_iron(III)_ABC_transporter,_ATP-binding_protein_1227705..1227935_POSITIVE 473 146 101 164 117 aact:AA02249|5end_thiamine_biosynthesis_protein_1528365..1528595_POSITIVE 473 118 81 168 132 aact:AA01220|5end_competence_protein_F;_amidophosphoribosyltransferase_832775..833005_POSITIVE 473 118 81 49 13 aact:AA01217|5end_hypothetical_protein_832656..832886_POSITIVE 471 129 81 194 144 aact:AA02201|5end_transferrin-binding_protein_1_precursor_1498022..1498252_POSITIVE 458 150 101 174 110 aact:AA02706|5end_2-oxoglutarate_dehydrogenase_E1_component_(decarboxylase_component)_1886843..1887073_POSITIVE 445 146 102 174 129 aact:AA00819|5end_D-alanyl-D-alanine_carboxypeptidase_562644..562874_POSITIVE 442 129 81 157 104 aact:AA00789|5end_DNA_topoisomerase_III_540486..540716_POSITIVE 440 112 76 165 129 aact:AA00557|5end_nitrate/nitrite_sensor_protein_380408..380638_POSITIVE 434 118 80 180 142 aact:AA00084|5end_aminotransferase_60814..61044_POSITIVE 429 125 81 158 112 aact:AA00174|5end_ribosomal_protein_L11_methyltransferase_123072..123302_POSITIVE 429 125 81 54 8 aact:AA00173|5end_hypothetical_protein_122968..123198_POSITIVE 426 126 81 138 93 aact:AA02673|5end_gluconate_utilization_operon_repressor_1858913..1859143_POSITIVE 422 112 79 84 51 aact:AA00264|5end_hypothetical_protein_185052..185282_POSITIVE 420 130 81 114 58 aact:AA01338|5end_hypothetical_protein_904967..905197_POSITIVE 419 149 101 156 114 aact:AA00300|5end_conserved_hypothetical_protein_203785..204015_POSITIVE 417 119 72 70 27 aact:AA01890|5end_cell-cycle_protein_1274544..1274774_POSITIVE 415 120 71 184 138 aact:AA00515|5end_hypothetical_protein_355730..355960_POSITIVE 415 120 71 63 17 aact:AA00514|5end_hypothetical_protein_355609..355839_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 606 130 82 139 88 aact:AA01917|3end_hypothetical_protein_1290996..1291146_POSITIVE 488 110 64 116 69 aact:AA01823|3end_hypothetical_protein_1227747..1227897_POSITIVE 485 120 75 54 4 aact:AA01822|3end_lysostaphin_precursor_1227671..1227821_POSITIVE 473 146 101 74 27 aact:AA02246|3end_peptidase_E_1528355..1528505_POSITIVE 440 112 76 119 83 aact:AA00555|3end_hypothetical_protein_380442..380592_POSITIVE 439 120 75 60 13 aact:AA02462|3end_thiol_peroxidase_(scavengase)_1702673..1702823_POSITIVE 434 118 80 137 99 aact:AA00083|3end_hypothetical_protein_60851..61001_POSITIVE 434 118 80 53 15 aact:AA00081|3end_fatty_acid_metabolism_regulator_protein_60767..60917_POSITIVE 429 125 81 143 97 aact:AA00173|3end_hypothetical_protein_123137..123287_POSITIVE 426 126 81 62 17 aact:AA02671|3end_gluconokinase_1858917..1859067_POSITIVE 424 110 65 89 44 aact:AA00523|3end_conserved_hypothetical_protein_358929..359079_POSITIVE 422 112 79 47 14 aact:AA00263|3end_ATP-dependent_RNA_helicase_185095..185245_POSITIVE 420 130 81 98 42 aact:AA01337|3end_cell_division_protein_N_905031..905181_POSITIVE 415 120 71 60 14 aact:AA00513|3end_pseudouridylate_synthase_(pseudouridine_synthase)_355686..355836_POSITIVE 414 127 81 53 9 aact:AA02772|3end_hypothetical_protein_1936776..1936926_POSITIVE 404 118 71 75 30 aact:AA01881|3end_adenylate_kinase_1269765..1269915_POSITIVE 403 128 82 78 28 aact:AA01107|3end_adenylosuccinate_lyase_763754..763904_POSITIVE 401 147 101 62 18 aact:AA01945|3end_selenophosphate_synthase_1316022..1316172_POSITIVE 389 146 114 108 76 aact:AA01217|3end_hypothetical_protein_832855..833005_POSITIVE 388 105 81 46 22 aact:AA00146|3end_UDP-glucose/GDP-mannose_dehydrogenase_105944..106094_POSITIVE