Origin IGS: taattcgacatcgtttataagaaaaaagtgcggtggatttcctcggcgttttaaaaacgtttgaaaaatccaccgcactttttgtctttttaatcctgcgaaatta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taatttcgcaggattaaaaagacaaaaagtgcggtggatttttcaaacgtttttaaaacgccgaggaaatccaccgcacttttttcttataaacgatgtcgaatta Mask Tandem Repeat Region ================================================ taattcgacatcgtttataagaaaaaagtgcggtggatttcctcggcgttttaaaaacgtttgaaaaatccaccgcactttttgtctttttaatcctgcgaaatta Find is-nt database================================================ Query_seq: AA01663:AA01666|AA01663:AA01666:GTP cyclohydrolase I:penicillin-binding protein 4; D-alanyl-D-alanine carboxypeptidase; D-alanyl-D-alanine-endopeptidase:->->:1128265..1128370 106 taattcgacatcgtttataagaaaaaagtgcggtggatttcctcggcgttttaaaaacgtttgaaaaatccaccgcactttttgtctttttaatcctgcgaaatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA01663:AA01666|AA01663:AA01666:GTP cyclohydrolase I:penicillin-binding protein 4; D-alanyl-D-alanine carboxypeptidase; D-alanyl-D-alanine-endopeptidase:->->:1128265..1128370 106 taattcgacatcgtttataagaaaaaagtgcggtggatttcctcggcgttttaaaaacgtttgaaaaatccaccgcactttttgtctttttaatcctgcgaaatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA01663:AA01666|AA01663:AA01666:GTP cyclohydrolase I:penicillin-binding protein 4; D-alanyl-D-alanine carboxypeptidase; D-alanyl-D-alanine-endopeptidase:->->:1128265..1128370 106 taattcgacatcgtttataagaaaaaagtgcggtggatttcctcggcgttttaaaaacgtttgaaaaatccaccgcactttttgtctttttaatcctgcgaaatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taattcgacatcgtttataagaaaaaagtgcggtggatttcctcggcgttttaaaaacgtttgaaaaatccaccgcactttttgtctttttaatcctgcgaaatta Predict ORF larger than 30AA ================================================ Protein_Len: 31 Strand: - Start: 2 End: 94 . I R C R K Y S F L A T S K R P T K F V N S F D V A S K T K K M ............ taattcgacatcgtttataagaaaaaagtgcggtggatttcctcggcgttttaaaaacgtttgaaaaatccaccgcactttttgtctttttaatcctgcgaaatta 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================================================ taattcgacatcgtttataagaaaaaagtgcggtggatttcctcggcgttttaaaaacgtttgaaaaatccaccgcactttttgtctttttaatcctgcgaaatta Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 100 HP_score: -13.4 Tail_Score: -5.36364 Start: 28 End: 78 Full_Region: GTTTATAAGAAAAAA GTGCGGTGGATTTCCTCGGCGTTT TAA AAACGTTTGAAAAATCCACCGCAC TTTTTGTCTTTTTAA ...........................GTGCGGTGGATTTCCTCGGCGTTTTAAAAACGTTTGAAAAATCCACCGCAC............................ TransTerm Strand: - Conf: 100 HP_score: -11.2 Tail_Score: -5.55769 Start: 28 End: 78 Full_Region: ttaaaaagacaaaaa gtgcggtggatttttcaaacgttt tta aaacgccgaggaaatccaccgcac ttttttcttataaac ...........................gtgcggtggatttttcaaacgtttttaaaacgccgaggaaatccaccgcac............................ Find igs database================================================ Query_seq: AA01663:AA01666|AA01663:AA01666:GTP cyclohydrolase I:penicillin-binding protein 4; D-alanyl-D-alanine carboxypeptidase; D-alanyl-D-alanine-endopeptidase:->->:1128265..1128370 106 taattcgacatcgtttataagaaaaaagtgcggtggatttcctcggcgttttaaaaacgtttgaaaaatccaccgcactttttgtctttttaatcctgcgaaatta Intra-Species Hit: Count: 1 Min: 1 Max: 106 Len: 106 Subject: aact_AA01663_AA01666|GTP cyclohydrolase I:penicillin-binding protein 4; D-alanyl-D-alanine carboxypeptidase; D-alanyl-D-alanine- endopeptidase|POSITIVE:POSITIVE|[1128265,1128370]|106 HSP 1 e-value: 6.0E-54 bit: 210.0 Len: 106 Query Start:1 Query End:106 Subject Strand: POSITIVE Subject Start: 1 Subject End: 106 taattcgacatcgtttataagaaaaaagtgcggtggatttcctcggcgttttaaaaacgtttgaaaaatccaccgcactttttgtctttttaatcctgcgaaatta taattcgacatcgtttataagaaaaaagtgcggtggatttcctcggcgttttaaaaacgtttgaaaaatccaccgcactttttgtctttttaatcctgcgaaatta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUUCGACAUCGUUUAUAAGAAAAAAGUGCGGUGGAUUUCCUCGGCGUUUUAAAAACGUUUGAAAAAUCCACCGCACUUUUUGUCUUUUUAAUCCUGCGAAAUUA ...((((.((..(((...((((((((((((((((((((((..((((((((.....)))).)))).)))))))))))))))))).))))...)))..)))))).... (-40.30) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUUUCGCAGGAUUAAAAAGACAAAAAGUGCGGUGGAUUUUUCAAACGUUUUUAAAACGCCGAGGAAAUCCACCGCACUUUUUUCUUAUAAACGAUGUCGAAUUA ((((((.(((........((((.((((((((((((((((((((....((((.....))))....))))))))))))))))))))))))........))).)))))) (-38.09) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 652 80 31 167 118 aact:AA02597|5end_ribonuclease_D_1807124..1807354_POSITIVE 556 80 31 182 132 aact:AA01824|5end_iron(III)_ABC_transporter,_ATP-binding_protein_1227705..1227935_POSITIVE 505 80 32 203 151 aact:AA00296|5end_conserved_hypothetical_protein_(possible_hemolysin_/_transport_protein)_202384..202614_POSITIVE 505 80 32 86 34 aact:AA00295|5end_hypothetical_protein_202267..202497_POSITIVE 444 80 31 164 107 aact:AA00250|5end_lipoate_biosynthesis_protein_A_175496..175726_POSITIVE 443 80 31 155 105 aact:AA01059|5end_orotate_phosphoribosyltransferase_735052..735282_POSITIVE 438 80 31 151 102 aact:AA01737|5end_exoribonuclease_II_1172647..1172877_POSITIVE 435 83 43 43 1 aact:AA01823|5end_hypothetical_protein_1227563..1227793_POSITIVE 434 80 31 168 109 aact:AA01918|5end_anaerobic_C4-dicarboxylate_transporter_1290931..1291161_POSITIVE 434 89 45 146 98 aact:AA01020|5end_enonolase;_2-phosphoglycerate_dehydratase_712741..712971_POSITIVE 429 80 31 175 126 aact:AA01564|5end_transaldolase_B_1049099..1049329_POSITIVE 425 100 53 194 149 aact:AA02030|5end_threonyl-tRNA_synthetase_1382171..1382401_POSITIVE 420 86 44 167 123 aact:AA01883|5end_recycling_protein;_permease_1269821..1270051_POSITIVE 418 85 45 188 149 aact:AA00679|5end_cytoplasmic_axial_filament_(Ribonuclease_G)_463288..463518_POSITIVE 412 84 41 80 41 aact:AA02123|5end_hypothetical_protein_1448244..1448474_POSITIVE 406 99 54 56 11 aact:AA01735|5end_hypothetical_protein_1172533..1172763_POSITIVE 405 87 41 129 81 aact:AA01187|5end_conserved_hypothetical_protein_813331..813561_POSITIVE 402 81 44 165 126 aact:AA01981|5end_4-alpha-glucanotransferase_1337202..1337432_POSITIVE 401 60 19 100 61 aact:AA00587|5end_hypothetical_protein_399975..400205_POSITIVE 400 63 24 194 155 aact:AA02915|5end_thioredoxin_m_2040652..2040882_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 652 80 31 73 24 aact:AA02595|3end_cytochrome_c_peroxidase_1807110..1807260_POSITIVE 556 80 31 144 94 aact:AA01823|3end_hypothetical_protein_1227747..1227897_POSITIVE 556 80 31 68 18 aact:AA01822|3end_lysostaphin_precursor_1227671..1227821_POSITIVE 505 80 32 77 25 aact:AA00292|3end_dihydrofolate_reductase_202338..202488_POSITIVE 456 80 31 65 16 aact:AA01663|3end_GTP_cyclohydrolase_I_1128204..1128354_POSITIVE 443 80 31 70 20 aact:AA01057|3end_DnaJ-like_protein_djlA_735047..735197_POSITIVE 438 80 31 138 89 aact:AA01735|3end_hypothetical_protein_1172714..1172864_POSITIVE 425 100 54 57 9 aact:AA01019|3end_conserved_hypothetical_protein_712719..712869_POSITIVE 418 85 45 68 29 aact:AA00675|3end_glutaredoxin_2_463248..463398_POSITIVE 406 80 31 75 26 aact:AA02462|3end_thiol_peroxidase_(scavengase)_1702673..1702823_POSITIVE 406 78 31 151 94 aact:AA01917|3end_hypothetical_protein_1290996..1291146_POSITIVE 405 87 41 119 71 aact:AA01185|3end_conserved_hypothetical_protein_(possible_membrane_protein)_813401..813551_POSITIVE 402 81 44 140 101 aact:AA01978|3end_hypothetical_protein_1337257..1337407_POSITIVE 401 60 19 71 32 aact:AA00586|3end_glycerol-3-phosphate_regulon_repressor_400026..400176_POSITIVE 397 99 55 45 1 aact:AA01734|3end_DNA-binding_protein;_DPS_family_protein_1172602..1172752_POSITIVE 393 97 53 150 113 aact:AA02029|3end_hypothetical_protein_1382215..1382365_POSITIVE 387 85 46 76 35 aact:AA00209|3end_D-ribose_ABC_transporter,_periplasmic-binding_protein_146032..146182_POSITIVE 377 82 46 141 102 aact:AA01389|3end_hypothetical_protein_937158..937308_POSITIVE 375 89 44 95 46 aact:AA01645|3end_ferric_transport_ABC-related_ATP-binding_protein_1115184..1115334_POSITIVE 375 80 31 79 29 aact:AA00709|3end_metallocluster_assembly_(NifU_protein)_487838..487988_POSITIVE