Origin IGS: actgtttccttgttgaaagaattgcctctatcatacgccaaatggcattttttataaatttttgttcccaatttaacgtaaaatctgtataattctcccgcaatatttttccctaaacactcaactaagagagatattgca .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tgcaatatctctcttagttgagtgtttagggaaaaatattgcgggagaattatacagattttacgttaaattgggaacaaaaatttataaaaaatgccatttggcgtatgatagaggcaattctttcaacaaggaaacagt Mask Tandem Repeat Region ================================================ actgtttccttgttgaaagaattgcctctatcatacgccaaatggcattttttataaatttttgttcccaatttaacgtaaaatctgtataattctcccgcaatatttttccctaaacactcaactaagagagatattgca Find is-nt database================================================ Query_seq: AA00628:AA00629|AA00628:AA00629:biotin operon repressor; biotin acetyl coenzyme A carboxylase synthetase:inosine 5' monophosphate dehydrogenase (IMP dehydrogenase):->->:431925..432065 141 actgtttccttgttgaaagaattgcctctatcatacgccaaatggcattttttataaatttttgttcccaatttaacgtaaaatctgtataattctcccgcaatatttttccctaaacactcaactaagagagatattgca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA00628:AA00629|AA00628:AA00629:biotin operon repressor; biotin acetyl coenzyme A carboxylase synthetase:inosine 5' monophosphate dehydrogenase (IMP dehydrogenase):->->:431925..432065 141 actgtttccttgttgaaagaattgcctctatcatacgccaaatggcattttttataaatttttgttcccaatttaacgtaaaatctgtataattctcccgcaatatttttccctaaacactcaactaagagagatattgca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA00628:AA00629|AA00628:AA00629:biotin operon repressor; biotin acetyl coenzyme A carboxylase synthetase:inosine 5' monophosphate dehydrogenase (IMP dehydrogenase):->->:431925..432065 141 actgtttccttgttgaaagaattgcctctatcatacgccaaatggcattttttataaatttttgttcccaatttaacgtaaaatctgtataattctcccgcaatatttttccctaaacactcaactaagagagatattgca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 actgtttccttgttgaaagaattgcctctatcatacgccaaatggcattttttataaatttttgttcccaatttaacgtaaaatctgtataattctcccgcaatatttttccctaaacactcaactaagagagatattgca Predict ORF larger than 30AA ================================================ Protein_Len: 45 Strand: - Start: 3 End: 137 .. T E K N F S N G R D Y A L H C K K Y I K T G L K V Y F R Y L E G A I N K G L C E V L L S M .... Protein_Len: 35 Strand: - Start: 2 End: 106 . Q K R T S L I A E I M R W I A N K I F K Q E W N L T F D T Y N E R L M ................................... actgtttccttgttgaaagaattgcctctatcatacgccaaatggcattttttataaatttttgttcccaatttaacgtaaaatctgtataattctcccgcaatatttttccctaaacactcaactaagagagatattgca Predict Promoter with matrix: RpoD-15 score > 80================================================ Predict Promoter with matrix: RpoD-16 score > 80================================================ Predict Promoter with matrix: RpoD-17 score > 80================================================ PromScan Matrix: RpoD-17 Strand: + Score: 87 Start: 64 End: 93 ...............................................................GTTCCCAATTTAACGTAAAATCTGTATAAT................................................ PromScan Matrix: RpoD-17 Strand: - Score: 85 Start: 30 End: 59 .............................ATTTATAAAAAATGCCATTTGGCGTATGAT.................................................................................. Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ actgtttccttgttgaaagaattgcctctatcatacgccaaatggcattttttataaatttttgttcccaatttaacgtaaaatctgtataattctcccgcaatatttttccctaaacactcaactaagagagatattgca Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA00628:AA00629|AA00628:AA00629:biotin operon repressor; biotin acetyl coenzyme A carboxylase synthetase:inosine 5' monophosphate dehydrogenase (IMP dehydrogenase):->->:431925..432065 141 actgtttccttgttgaaagaattgcctctatcatacgccaaatggcattttttataaatttttgttcccaatttaacgtaaaatctgtataattctcccgcaatatttttccctaaacactcaactaagagagatattgca Intra-Species Hit: Count: 1 Min: 1 Max: 141 Len: 141 Subject: aact_AA00628_AA00629|biotin operon repressor; biotin acetyl coenzyme A carboxylase synthetase:inosine 5' monophosphate dehydrogenase (IMP dehydrogenase)|POSITIVE:POSITIVE|[431925,432065]|141 HSP 1 e-value: 1.0E-74 bit: 280.0 Len: 141 Query Start:1 Query End:141 Subject Strand: POSITIVE Subject Start: 1 Subject End: 141 actgtttccttgttgaaagaattgcctctatcatacgccaaatggcattttttataaatttttgttcccaatttaacgtaaaatctgtataattctcccgcaatatttttccctaaacactcaactaagagagatattgca actgtttccttgttgaaagaattgcctctatcatacgccaaatggcattttttataaatttttgttcccaatttaacgtaaaatctgtataattctcccgcaatatttttccctaaacactcaactaagagagatattgca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ ACUGUUUCCUUGUUGAAAGAAUUGCCUCUAUCAUACGCCAAAUGGCAUUUUUUAUAAAUUUUUGUUCCCAAUUUAACGUAAAAUCUGUAUAAUUCUCCCGCAAUAUUUUUCCCUAAACACUCAACUAAGAGAGAUAUUGCA .................(((((((............(((....)))......((((.(((((((((........)))).))))).)))))))))))...((((((((((((.................)))))))))))). (-22.53) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGCAAUAUCUCUCUUAGUUGAGUGUUUAGGGAAAAAUAUUGCGGGAGAAUUAUACAGAUUUUACGUUAAAUUGGGAACAAAAAUUUAUAAAAAAUGCCAUUUGGCGUAUGAUAGAGGCAAUUCUUUCAACAAGGAAACAGU .(((((((.(((((.............)))))...)))))))(..((((((......(((.((((((((((.((.(..................).)))))))))))).)))......))))))..).....(....)... (-28.49) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 309 47 2 59 9 aact:AA01106|5end_conserved_hypothetical_protein_761675..761905_POSITIVE 303 50 2 222 167 aact:AA00579|5end_probable_DNA_recombination_protein_395265..395495_POSITIVE 296 102 61 227 186 aact:AA01746|5end_thiol:disulfide_interchange_protein_1180636..1180866_POSITIVE 270 46 1 168 115 aact:AA01460|5end_hypothetical_protein_981412..981642_POSITIVE 269 59 11 54 13 aact:AA02526|5end_conserved_hypothetical_protein_1755225..1755455_POSITIVE 266 67 21 89 44 aact:AA01306|5end_glutathione_reductase_886538..886768_POSITIVE 259 47 1 53 9 aact:AA00614|5end_ribonuclease_HII_(RNase_HII)_419890..420120_POSITIVE 253 46 2 183 149 aact:AA02731|5end_outer_membrane_lipoprotein_carrier_precursor_1911498..1911728_POSITIVE 248 47 5 98 55 aact:AA01566|5end_conserved_hypothetical_protein_1051811..1052041_POSITIVE 248 47 5 98 55 aact:AA01261|5end_conserved_hypothetical_protein_856443..856673_POSITIVE 247 47 6 218 182 aact:AA01874|5end_conserved_hypothetical_protein_1262036..1262266_POSITIVE 245 46 2 179 137 aact:AA01630|5end_threonine_efflux_protein_1102381..1102611_POSITIVE 245 47 3 59 6 aact:AA01356|5end_lipooligosaccharide_galactosyltransferase_II_(comL_related)_918306..918536_POSITIVE 243 47 5 152 98 aact:AA01067|5end_30S_ribosomal_protein_S2_738898..739128_POSITIVE 241 122 86 224 180 aact:AA00529|5end_outer_membrane_protein,_Omp_18/16_361730..361960_POSITIVE 240 105 86 106 87 aact:AA01221|5end_transformation_locus_protein_orfG_homolog_833578..833808_POSITIVE 239 47 1 101 60 aact:AA01551|5end_hypothetical_protein_1038190..1038420_POSITIVE 238 49 11 84 45 aact:AA00512|5end_conserved_hypothetical_protein_354411..354641_POSITIVE 236 100 57 163 114 aact:AA01974|5end_conserved_hypothetical_protein_1335891..1336121_POSITIVE 234 47 11 42 1 aact:AA02692|5end_hydrogenase_4_subunit;_hydrogenase_3_subunit_1876324..1876554_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 303 50 2 78 23 aact:AA00578|3end_DNA_topoisomerase_395201..395351_POSITIVE 296 102 61 143 102 aact:AA01745|3end_conserved_hypothetical_protein_(possible_peptide_chain_release_factor_2)_1180632..1180782_POSITIVE 269 59 11 51 10 aact:AA02525|3end_conserved_hypothetical_protein_1755302..1755452_POSITIVE 259 47 1 57 13 aact:AA00613|3end_lipid-A-disaccharide_synthase_419974..420124_POSITIVE 247 47 6 42 6 aact:AA01873|3end_mannose-6-phosphate_isomerase_1261940..1262090_POSITIVE 243 47 5 74 20 aact:AA01066|3end_conserved_hypothetical_protein_738900..739050_POSITIVE 241 122 86 117 73 aact:AA00528|3end_conserved_hypothetical_protein_361703..361853_POSITIVE 239 47 1 123 82 aact:AA01550|3end_hypothetical_protein_1038292..1038442_POSITIVE 238 49 11 75 36 aact:AA00511|3end_nicotinamide_mononucleotide_transporter_354482..354632_POSITIVE 227 46 6 49 14 aact:AA00992|3end_ribonuclease_BN_694568..694718_POSITIVE 222 47 1 37 6 aact:AA01232|3end_30S_ribosomal_protein_S8_840914..841064_POSITIVE 222 56 21 63 26 aact:AA00989|3end_hypothetical_protein_692644..692794_POSITIVE 221 45 5 147 108 aact:AA00863|3end_conserved_hypothetical_protein_598678..598828_POSITIVE 220 89 56 132 101 aact:AA02704|3end_dihydrolipoamide_succinyltransferase_1886795..1886945_POSITIVE 214 46 5 66 30 aact:AA02300|3end_glutamate_racemase_1572252..1572402_POSITIVE 214 45 2 69 21 aact:AA00794|3end_phosphohydrolase_544800..544950_POSITIVE 214 52 14 90 42 aact:AA00140|3end_hypothetical_protein_100872..101022_POSITIVE 213 66 21 41 2 aact:AA00105|3end_conserved_hypothetical_protein_75609..75759_POSITIVE 212 39 2 65 19 aact:AA00202|3end_conserved_hypothetical_protein_(possible_membrane_protein)_141420..141570_POSITIVE 211 46 1 102 53 aact:AA01345|3end_conserved_hypothetical_protein_(possible_membrane_protein)_913261..913411_POSITIVE