Origin IGS: tagtccgttcattcttccggtgtaatataaaatattgcatcggatcacctttttaaactgcctgccttgttatttattcaataatgttctaccctattataccaataaatggaggttgtat .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 atacaacctccatttattggtataatagggtagaacattattgaataaataacaaggcaggcagtttaaaaaggtgatccgatgcaatattttatattacaccggaagaatgaacggacta Mask Tandem Repeat Region ================================================ tagtccgttcattcttccggtgtaatataaaatattgcatcggatcacctttttaaactgcctgccttgttatttattcaataatgttctaccctattataccaataaatggaggttgtat Find is-nt database================================================ Query_seq: AA02124:AA02125|AA02124:AA02125:anaerobic regulatory protein; transcription regulator Fnr:conserved hypothetical protein; possible universal stress protein:->->:1449431..1449551 121 tagtccgttcattcttccggtgtaatataaaatattgcatcggatcacctttttaaactgcctgccttgttatttattcaataatgttctaccctattataccaataaatggaggttgtat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA02124:AA02125|AA02124:AA02125:anaerobic regulatory protein; transcription regulator Fnr:conserved hypothetical protein; possible universal stress protein:->->:1449431..1449551 121 tagtccgttcattcttccggtgtaatataaaatattgcatcggatcacctttttaaactgcctgccttgttatttattcaataatgttctaccctattataccaataaatggaggttgtat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA02124:AA02125|AA02124:AA02125:anaerobic regulatory protein; transcription regulator Fnr:conserved hypothetical protein; possible universal stress protein:->->:1449431..1449551 121 tagtccgttcattcttccggtgtaatataaaatattgcatcggatcacctttttaaactgcctgccttgttatttattcaataatgttctaccctattataccaataaatggaggttgtat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tagtccgttcattcttccggtgtaatataaaatattgcatcggatcacctttttaaactgcctgccttgttatttattcaataatgttctaccctattataccaataaatggaggttgtat Predict ORF larger than 30AA ================================================ Protein_Len: 30 Strand: + Start: 32 End: 121 ............................... M L H R I T F L N C L P C Y L F N N V L P Y Y T N K W R L Y tagtccgttcattcttccggtgtaatataaaatattgcatcggatcacctttttaaactgcctgccttgttatttattcaataatgttctaccctattataccaataaatggaggttgtat 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================================================ tagtccgttcattcttccggtgtaatataaaatattgcatcggatcacctttttaaactgcctgccttgttatttattcaataatgttctaccctattataccaataaatggaggttgtat Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA02124:AA02125|AA02124:AA02125:anaerobic regulatory protein; transcription regulator Fnr:conserved hypothetical protein; possible universal stress protein:->->:1449431..1449551 121 tagtccgttcattcttccggtgtaatataaaatattgcatcggatcacctttttaaactgcctgccttgttatttattcaataatgttctaccctattataccaataaatggaggttgtat Intra-Species Hit: Count: 1 Min: 1 Max: 121 Len: 121 Subject: aact_AA02124_AA02125|anaerobic regulatory protein; transcription regulator Fnr:conserved hypothetical protein; possible universal stress protein|POSITIVE:POSITIVE|[1449431,1449551]|121 HSP 1 e-value: 8.0E-63 bit: 240.0 Len: 121 Query Start:1 Query End:121 Subject Strand: POSITIVE Subject Start: 1 Subject End: 121 tagtccgttcattcttccggtgtaatataaaatattgcatcggatcacctttttaaactgcctgccttgttatttattcaataatgttctaccctattataccaataaatggaggttgtat tagtccgttcattcttccggtgtaatataaaatattgcatcggatcacctttttaaactgcctgccttgttatttattcaataatgttctaccctattataccaataaatggaggttgtat Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGUCCGUUCAUUCUUCCGGUGUAAUAUAAAAUAUUGCAUCGGAUCACCUUUUUAAACUGCCUGCCUUGUUAUUUAUUCAAUAAUGUUCUACCCUAUUAUACCAAUAAAUGGAGGUUGUAU ...............(((((((((((((...)))))))))))))..............(((..(((((..((((((((..((((((........))))))...))))))))))))).))). (-25.70) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUACAACCUCCAUUUAUUGGUAUAAUAGGGUAGAACAUUAUUGAAUAAAUAACAAGGCAGGCAGUUUAAAAAGGUGAUCCGAUGCAAUAUUUUAUAUUACACCGGAAGAAUGAACGGACUA ......(((((..(((((.((.(((((((......).)))))).)).)))))...)).))).(((((..........((((.((.(((((...))))).)).)))).........))))). (-15.01) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 314 44 2 167 126 aact:AA02903|5end_conserved_hypothetical_protein_(ribosomal_protein_L36)_2032140..2032370_POSITIVE 270 70 38 56 15 aact:AA01567|5end_conserved_hypothetical_protein_(possible_cell-wall-associated_hydrolase)_1054944..1055174_POSITIVE 270 70 38 56 15 aact:AA01262|5end_hydrolase_859576..859806_POSITIVE 259 49 4 214 155 aact:AA00543|5end_ADP-heptose--LPS_heptosyltransferase_II_371287..371517_POSITIVE 258 69 25 135 85 aact:AA02728|5end_conserved_hypothetical_protein_(possible_ATPase)_1910145..1910375_POSITIVE 248 49 3 192 150 aact:AA01589|5end_conserved_hypothetical_protein_1070300..1070530_POSITIVE 247 65 32 169 135 aact:AA02487|5end_hypothetical_protein_1726277..1726507_POSITIVE 246 44 1 201 151 aact:AA02611|5end_hypothetical_protein_1821389..1821619_POSITIVE 246 66 34 187 155 aact:AA01400|5end_phosphopantetheine_adenylyltransferase_945679..945909_POSITIVE 244 50 3 228 169 aact:AA01306|5end_glutathione_reductase_886538..886768_POSITIVE 243 71 32 120 71 aact:AA02936|5end_lipoprotein_E_precursor;_outer_membrane_protein_P4_precursor;_acid_phosphatase_2055610..2055840_POSITIVE 234 43 2 103 69 aact:AA01066|5end_conserved_hypothetical_protein_738380..738610_POSITIVE 233 70 36 210 173 aact:AA01408|5end_conserved_hypothetical_protein_950191..950421_POSITIVE 232 72 38 199 166 aact:AA00792|5end_conserved_hypothetical_protein_543142..543372_POSITIVE 232 71 40 112 79 aact:AA00634|5end_DNA_polymerase_IV_(Pol_IV)_435182..435412_POSITIVE 227 100 62 179 142 aact:AA01640|5end_restriction_enzyme_type_I_helicase_subunit_1109230..1109460_POSITIVE 227 100 62 85 48 aact:AA01639|5end_hypothetical_protein_1109136..1109366_POSITIVE 227 76 35 85 45 aact:AA01525|5end_amino_acid_ABC_transporter,_permease_component_1024277..1024507_POSITIVE 226 46 10 173 129 aact:AA01994|5end_chorismate_mutase;_prephenate_dehydrogenase_1354959..1355189_POSITIVE 224 50 5 127 85 aact:AA01747|5end_single-stranded-DNA-specific_exonuclease_1181359..1181589_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 336 65 21 143 92 aact:AA02939|3end_phosphoserine_phosphatase_2057902..2058052_POSITIVE 299 44 16 75 47 aact:AA02124|3end_anaerobic_regulatory_protein;_transcription_regulator_Fnr_1449370..1449520_POSITIVE 247 65 32 124 90 aact:AA02486|3end_topoisomerase_IV,_subunit_B_1726312..1726462_POSITIVE 247 75 38 151 108 aact:AA01279|3end_phage_exclusion-related_protein_868153..868303_POSITIVE 246 66 34 119 87 aact:AA01398|3end_KDO_kinase_945691..945841_POSITIVE 244 50 3 130 71 aact:AA01305|3end_conserved_hypothetical_protein_886520..886670_POSITIVE 234 43 2 35 1 aact:AA01064|3end_conserved_hypothetical_protein_(possible_aminomethyltransferase)_738392..738542_POSITIVE 233 47 7 51 17 aact:AA00429|3end_conserved_hypothetical_protein_291891..292041_POSITIVE 232 72 38 111 78 aact:AA00790|3end_recombination_DNA_repair_protein_543134..543284_POSITIVE 227 76 35 72 32 aact:AA01524|3end_amino_acid_ABC_transporter,_ATP-binding_protein_1024344..1024494_POSITIVE 226 46 10 138 94 aact:AA01992|3end_protease_IV;_signal_peptide_peptidase;_Endopeptidase_IV_1355004..1355154_POSITIVE 224 50 5 84 42 aact:AA01746|3end_thiol:disulfide_interchange_protein_1181396..1181546_POSITIVE 219 71 35 113 73 aact:AA02990|3end_beta_hexosaminadase_2090596..2090746_POSITIVE 218 50 8 127 84 aact:AA00330|3end_conserved_hypothetical_protein_223976..224126_POSITIVE 216 76 40 90 50 aact:AA01626|3end_N_utilization_substance_protein_B_1100946..1101096_POSITIVE 211 82 41 112 81 aact:AA01718|3end_DNA_polymerase_III,_chi_subunit_1163316..1163466_POSITIVE 210 65 31 139 104 aact:AA02679|3end_formate_dehydrogenase,_gamma_subunit_1865811..1865961_POSITIVE 208 69 31 133 88 aact:AA02762|3end_ribonuclease_H_1933708..1933858_POSITIVE 208 49 3 57 11 aact:AA02705|3end_hypothetical_protein_1886928..1887078_POSITIVE 208 65 37 120 92 aact:AA00973|3end_transcriptional_regulator,_DeoR_family_679237..679387_POSITIVE