Origin IGS: gttttgttcctttgctttgtgttggggcaacattatacttgcaacaaacaaaaaaacagaagtttattctgcttttttgatacgcttatccaatgaacaagcttttaataagtcccatttcgaactaatacagtttttaaggttca .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tgaaccttaaaaactgtattagttcgaaatgggacttattaaaagcttgttcattggataagcgtatcaaaaaagcagaataaacttctgtttttttgtttgttgcaagtataatgttgccccaacacaaagcaaaggaacaaaac Mask Tandem Repeat Region ================================================ gttttgttcctttgctttgtgttggggcaacattatacttgcaacaaacaaaaaaacagaagtttattctgcttttttgatacgcttatccaatgaacaagcttttaataagtcccatttcgaactaatacagtttttaaggttca Find is-nt database================================================ Query_seq: AA02628:AA02629|AA02628:AA02629:exodeoxyribonuclease III:hypothetical protein:->->:1830066..1830211 146 gttttgttcctttgctttgtgttggggcaacattatacttgcaacaaacaaaaaaacagaagtttattctgcttttttgatacgcttatccaatgaacaagcttttaataagtcccatttcgaactaatacagtttttaaggttca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA02628:AA02629|AA02628:AA02629:exodeoxyribonuclease III:hypothetical protein:->->:1830066..1830211 146 gttttgttcctttgctttgtgttggggcaacattatacttgcaacaaacaaaaaaacagaagtttattctgcttttttgatacgcttatccaatgaacaagcttttaataagtcccatttcgaactaatacagtttttaaggttca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA02628:AA02629|AA02628:AA02629:exodeoxyribonuclease III:hypothetical protein:->->:1830066..1830211 146 gttttgttcctttgctttgtgttggggcaacattatacttgcaacaaacaaaaaaacagaagtttattctgcttttttgatacgcttatccaatgaacaagcttttaataagtcccatttcgaactaatacagtttttaaggttca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gttttgttcctttgctttgtgttggggcaacattatacttgcaacaaacaaaaaaacagaagtttattctgcttttttgatacgcttatccaatgaacaagcttttaataagtcccatttcgaactaatacagtttttaaggttca Predict ORF larger than 30AA ================================================ Protein_Len: 30 Strand: + Start: 4 End: 93 ... M F L C F V L G Q H Y T C N K Q K N R S L F C F F D T L I Q ..................................................... Protein_Len: 43 Strand: + Start: 17 End: 145 ................ M C W G N I I L A T N K K T E V Y S A F L I R L S N E Q A F N K S H F E L I Q F L R F . gttttgttcctttgctttgtgttggggcaacattatacttgcaacaaacaaaaaaacagaagtttattctgcttttttgatacgcttatccaatgaacaagcttttaataagtcccatttcgaactaatacagtttttaaggttca 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================================================ gttttgttcctttgctttgtgttggggcaacattatacttgcaacaaacaaaaaaacagaagtttattctgcttttttgatacgcttatccaatgaacaagcttttaataagtcccatttcgaactaatacagtttttaaggttca Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 100 HP_score: -10.7 Tail_Score: -4.17556 Start: 49 End: 79 Full_Region: attggataagcgtat caaaaaagcagaa taaac ttctgtttttttg tttgttgcaagtata ................................................caaaaaagcagaataaacttctgtttttttg................................................................... TransTerm Strand: - Conf: 93 HP_score: -4.3 Tail_Score: -6.08342 Start: 57 End: 71 Full_Region: agcgtatcaaaaaag cagaa taaac ttctg tttttttgtttgttg ........................................................cagaataaacttctg........................................................................... Find igs database================================================ Query_seq: AA02628:AA02629|AA02628:AA02629:exodeoxyribonuclease III:hypothetical protein:->->:1830066..1830211 146 gttttgttcctttgctttgtgttggggcaacattatacttgcaacaaacaaaaaaacagaagtttattctgcttttttgatacgcttatccaatgaacaagcttttaataagtcccatttcgaactaatacagtttttaaggttca Intra-Species Hit: Count: 1 Min: 1 Max: 146 Len: 146 Subject: aact_AA02628_AA02629|exodeoxyribonuclease III:hypothetical protein|POSITIVE:POSITIVE|[1830066,1830211]|146 HSP 1 e-value: 4.0E-65 bit: 248.0 Len: 146 Query Start:1 Query End:146 Subject Strand: POSITIVE Subject Start: 1 Subject End: 146 gttttgttcctttgctttgtgttggggcaacattatacttgcaacaaacnnnnnnncagaagtttattctgcttttttgatacgcttatccaatgaacaagcttttaataagtcccatttcgaactaatacagtttttaaggttca gttttgttcctttgctttgtgttggggcaacattatacttgcaacaaacaaaaaaacagaagtttattctgcttttttgatacgcttatccaatgaacaagcttttaataagtcccatttcgaactaatacagtttttaaggttca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GUUUUGUUCCUUUGCUUUGUGUUGGGGCAACAUUAUACUUGCAACAAACAAAAAAACAGAAGUUUAUUCUGCUUUUUUGAUACGCUUAUCCAAUGAACAAGCUUUUAAUAAGUCCCAUUUCGAACUAAUACAGUUUUUAAGGUUCA ....((..((((....((((((((((((....................(((((((.(((((.....))))).)))))))....((((.((....))..)))).........))))))..........)))))).....))))..)) (-29.00) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAACCUUAAAAACUGUAUUAGUUCGAAAUGGGACUUAUUAAAAGCUUGUUCAUUGGAUAAGCGUAUCAAAAAAGCAGAAUAAACUUCUGUUUUUUUGUUUGUUGCAAGUAUAAUGUUGCCCCAACACAAAGCAAAGGAACAAAAC ....((((...(((((...))))).....((((.(.(((((...(((((((.....)))))))....(((((((((((((.....))))))))))))).............)))))..).))))..........))))........ (-31.60) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 265 45 9 216 167 aact:AA02502|5end_adenine_phosphoribosyltransferase_1737582..1737812_POSITIVE 250 50 1 144 81 aact:AA00136|5end_sodium/sulphate_transporter_96992..97222_POSITIVE 249 42 13 141 112 aact:AA02797|5end_carbohydrate_kinase;_myo-inositol_catabolism_protein_1963883..1964113_POSITIVE 248 49 9 179 137 aact:AA01188|5end_conserved_hypothetical_protein_813912..814142_POSITIVE 241 45 9 229 193 aact:AA02050|5end_1-deoxy-D-xylulose_5-phosphate_synthase_1395625..1395855_POSITIVE 241 45 9 130 94 aact:AA02049|5end_hypothetical_protein_1395526..1395756_POSITIVE 237 46 14 84 42 aact:AA01029|5end_Na(+)-translocating_NADH-quinone_reductase_subunit_D_719523..719753_POSITIVE 234 64 26 145 109 aact:AA02807|5end_leukotoxin_activator_(leukotoxin_C)_1977102..1977332_POSITIVE 230 42 3 196 154 aact:AA00202|5end_conserved_hypothetical_protein_(possible_membrane_protein)_140546..140776_POSITIVE 229 46 5 78 27 aact:AA02536|5end_conserved_hypothetical_protein_1764854..1765084_POSITIVE 229 42 5 140 94 aact:AA01904|5end_hypothetical_protein_1284448..1284678_POSITIVE 229 124 82 84 47 aact:AA00218|5end_argininosuccinate_lyase_150758..150988_POSITIVE 223 31 3 211 176 aact:AA02845|5end_Holliday_junction_DNA_helicase_1997970..1998200_POSITIVE 219 43 7 187 155 aact:AA00200|5end_thymidylate_synthase_138892..139122_POSITIVE 218 32 9 45 15 aact:AA01827|5end_iron(III)_ABC_transporter,_periplasmic_binding_protein_1230431..1230661_POSITIVE 216 48 1 73 19 aact:AA00201|5end_prolipoprotein_diacylglyceryl_transferase_139740..139970_POSITIVE 214 46 2 186 147 aact:AA02921|5end_conserved_hypothetical_protein_(cell_filamentation_protein)_2045674..2045904_POSITIVE 213 118 82 105 67 aact:AA01525|5end_amino_acid_ABC_transporter,_permease_component_1024277..1024507_POSITIVE 211 104 69 227 189 aact:AA00613|5end_lipid-A-disaccharide_synthase_418713..418943_POSITIVE 210 50 4 57 4 aact:AA02706|5end_2-oxoglutarate_dehydrogenase_E1_component_(decarboxylase_component)_1886843..1887073_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 254 42 2 58 12 aact:AA00729|3end_possible_hemolysin_(TlyC-like)_501177..501327_POSITIVE 249 42 13 95 66 aact:AA02796|3end_possible_transcriptional_regulator,_RpiR_family_1963917..1964067_POSITIVE 241 45 9 103 67 aact:AA02048|3end_galactitol_utilization_operon_repressor_1395579..1395729_POSITIVE 237 46 14 77 35 aact:AA01028|3end_Na(+)-translocating_NADH-quinone_reductase_subunit_E_719596..719746_POSITIVE 234 64 26 129 93 aact:AA02806|3end_leukotoxin_A;_hemolysin_A_1977166..1977316_POSITIVE 230 35 1 132 93 aact:AA01041|3end_hypothetical_protein_725055..725205_POSITIVE 229 124 82 71 34 aact:AA00217|3end_hypothetical_protein_150825..150975_POSITIVE 228 139 91 136 89 aact:AA01547|3end_deoxyribose-phosphate_aldolase_1037019..1037169_POSITIVE 226 44 14 112 85 aact:AA02499|3end_dolichol_phosphate_mannose_1734544..1734694_POSITIVE 223 31 3 46 11 aact:AA02844|3end_Holliday_junction_DNA_helicase_1997885..1998035_POSITIVE 220 32 3 145 114 aact:AA00976|3end_conserved_hypothetical_protein_682278..682428_POSITIVE 218 108 62 113 75 aact:AA00987|3end_tetracenomycin_polyketide_synthesis_O-methyltransferase_690586..690736_POSITIVE 213 118 82 92 54 aact:AA01524|3end_amino_acid_ABC_transporter,_ATP-binding_protein_1024344..1024494_POSITIVE 212 32 1 125 85 aact:AA02407|3end_thymidine_kinase_1653240..1653390_POSITIVE 211 104 69 139 101 aact:AA00612|3end_acyl-(acyl-carrier-protein)-UDP-N-acetylglucosami_ne_418705..418855_POSITIVE 210 50 4 62 9 aact:AA02705|3end_hypothetical_protein_1886928..1887078_POSITIVE 208 30 1 88 55 aact:AA02384|3end_2-dehydro-3-deoxygluconokinase_1633133..1633283_POSITIVE 207 44 2 60 18 aact:AA01538|3end_conserved_hypothetical_protein_1032734..1032884_POSITIVE 205 107 67 145 95 aact:AA01233|3end_50S_ribosomal_protein_L6_841463..841613_POSITIVE 205 42 2 124 81 aact:AA01209|3end_conserved_hypothetical_protein_827007..827157_POSITIVE