Origin IGS: tagtgcgatattttctgcaaaaataacatttcctgctttgctttaagtgcaacttagattaagctttgcactgcactgattccagtgattatggtcattgaatagataatcttaaacgttgtttattccaccaatgtcaaatttatttaaaaatagaaggtactagtct .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 agactagtaccttctatttttaaataaatttgacattggtggaataaacaacgtttaagattatctattcaatgaccataatcactggaatcagtgcagtgcaaagcttaatctaagttgcacttaaagcaaagcaggaaatgttatttttgcagaaaatatcgcacta Mask Tandem Repeat Region ================================================ tagtgcgatattttctgcaaaaataacatttcctgctttgctttaagtgcaacttagattaagctttgcactgcactgattccagtgattatggtcattgaatagataatcttaaacgttgtttattccaccaatgtcaaatttatttaaaaatagaaggtactagtct Find is-nt database================================================ Query_seq: AA00971:AA00972|AA00971:AA00972:conserved hypothetical protein:DNA-binding protein HU-ALPHA:->->:677936..678104 169 tagtgcgatattttctgcaaaaataacatttcctgctttgctttaagtgcaacttagattaagctttgcactgcactgattccagtgattatggtcattgaatagataatcttaaacgttgtttattccaccaatgtcaaatttatttaaaaatagaaggtactagtct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA00971:AA00972|AA00971:AA00972:conserved hypothetical protein:DNA-binding protein HU-ALPHA:->->:677936..678104 169 tagtgcgatattttctgcaaaaataacatttcctgctttgctttaagtgcaacttagattaagctttgcactgcactgattccagtgattatggtcattgaatagataatcttaaacgttgtttattccaccaatgtcaaatttatttaaaaatagaaggtactagtct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA00971:AA00972|AA00971:AA00972:conserved hypothetical protein:DNA-binding protein HU-ALPHA:->->:677936..678104 169 tagtgcgatattttctgcaaaaataacatttcctgctttgctttaagtgcaacttagattaagctttgcactgcactgattccagtgattatggtcattgaatagataatcttaaacgttgtttattccaccaatgtcaaatttatttaaaaatagaaggtactagtct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tagtgcgatattttctgcaaaaataacatttcctgctttgctttaagtgcaacttagattaagctttgcactgcactgattccagtgattatggtcattgaatagataatcttaaacgttgtttattccaccaatgtcaaatttatttaaaaatagaaggtactagtct Predict ORF larger than 30AA ================================================ tagtgcgatattttctgcaaaaataacatttcctgctttgctttaagtgcaacttagattaagctttgcactgcactgattccagtgattatggtcattgaatagataatcttaaacgttgtttattccaccaatgtcaaatttatttaaaaatagaaggtactagtct 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================================================ tagtgcgatattttctgcaaaaataacatttcctgctttgctttaagtgcaacttagattaagctttgcactgcactgattccagtgattatggtcattgaatagataatcttaaacgttgtttattccaccaatgtcaaatttatttaaaaatagaaggtactagtct Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA00971:AA00972|AA00971:AA00972:conserved hypothetical protein:DNA-binding protein HU-ALPHA:->->:677936..678104 169 tagtgcgatattttctgcaaaaataacatttcctgctttgctttaagtgcaacttagattaagctttgcactgcactgattccagtgattatggtcattgaatagataatcttaaacgttgtttattccaccaatgtcaaatttatttaaaaatagaaggtactagtct Intra-Species Hit: Count: 1 Min: 1 Max: 169 Len: 169 Subject: aact_AA00971_AA00972|conserved hypothetical protein:DNA-binding protein HU-ALPHA|POSITIVE:POSITIVE|[677936,678104]|169 HSP 1 e-value: 3.0E-91 bit: 335.0 Len: 169 Query Start:1 Query End:169 Subject Strand: POSITIVE Subject Start: 1 Subject End: 169 tagtgcgatattttctgcaaaaataacatttcctgctttgctttaagtgcaacttagattaagctttgcactgcactgattccagtgattatggtcattgaatagataatcttaaacgttgtttattccaccaatgtcaaatttatttaaaaatagaaggtactagtct tagtgcgatattttctgcaaaaataacatttcctgctttgctttaagtgcaacttagattaagctttgcactgcactgattccagtgattatggtcattgaatagataatcttaaacgttgtttattccaccaatgtcaaatttatttaaaaatagaaggtactagtct Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGUGCGAUAUUUUCUGCAAAAAUAACAUUUCCUGCUUUGCUUUAAGUGCAACUUAGAUUAAGCUUUGCACUGCACUGAUUCCAGUGAUUAUGGUCAUUGAAUAGAUAAUCUUAAACGUUGUUUAUUCCACCAAUGUCAAAUUUAUUUAAAAAUAGAAGGUACUAGUCU ((((((((((.....((((((.............((((...((((((.....))))))..))))))))))...(((((....)))))....((((....(((((((((((.......))))))))))).)))).))))...((((((....))))))..)))))).... (-33.01) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGACUAGUACCUUCUAUUUUUAAAUAAAUUUGACAUUGGUGGAAUAAACAACGUUUAAGAUUAUCUAUUCAAUGACCAUAAUCACUGGAAUCAGUGCAGUGCAAAGCUUAAUCUAAGUUGCACUUAAAGCAAAGCAGGAAAUGUUAUUUUUGCAGAAAAUAUCGCACUA ...(((((......((((....)))).......((((((((((.(((.(.........).))))))).)))))).........)))))....(((((.(((((..(((((...))))))))))..........(((((((......)))))))..........))))). (-30.30) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 308 69 27 99 55 aact:AA00240|5end_hypothetical_protein_171390..171620_POSITIVE 291 77 31 209 163 aact:AA00864|5end_conserved_hypothetical_protein_598605..598835_POSITIVE 265 109 61 181 135 aact:AA01987|5end_hypothetical_protein_1350415..1350645_POSITIVE 265 87 42 231 186 aact:AA01890|5end_cell-cycle_protein_1274544..1274774_POSITIVE 265 75 33 42 1 aact:AA01294|5end_DNA_adenine_methylase_876415..876645_POSITIVE 262 51 11 127 79 aact:AA01829|5end_hypothetical_protein_1231403..1231633_POSITIVE 259 88 46 69 16 aact:AA01370|5end_rod_shape-determining_protein_925436..925666_POSITIVE 255 75 32 194 129 aact:AA01188|5end_conserved_hypothetical_protein_813912..814142_POSITIVE 254 90 42 55 3 aact:AA02357|5end_bifunctional_protein:_aspartokinase_I;_homoserine_dehydrogenaseI_1614668..1614898_POSITIVE 254 87 41 225 175 aact:AA01922|5end_translation_initiation_factor_IF2_1294710..1294940_POSITIVE 253 102 63 215 169 aact:AA02368|5end_conserved_hypothetical_protein_1623544..1623774_POSITIVE 253 100 54 47 4 aact:AA02353|5end_spermidine_/_putrescine_transport_ATP-binding_1611352..1611582_POSITIVE 246 80 33 70 17 aact:AA00948|5end_probable_ECF-family_RNA_polymerase_sigma_factor_655447..655677_POSITIVE 243 76 33 109 77 aact:AA01335|5end_primosomal_protein_N'_901993..902223_POSITIVE 241 100 61 217 167 aact:AA01194|5end_acyl_carrier_protein_819595..819825_POSITIVE 240 99 63 92 46 aact:AA01465|5end_mannose-specific_phosphotransferase_element_984472..984702_POSITIVE 239 50 3 172 132 aact:AA02025|5end_hypothetical_protein_1378667..1378897_POSITIVE 239 50 2 191 128 aact:AA01251|5end_hypothetical_protein_851825..852055_POSITIVE 239 50 2 52 5 aact:AA00809|5end_possible_oxidoreductase_553211..553441_POSITIVE 238 59 12 220 170 aact:AA01253|5end_hypothetical_protein_852189..852419_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 308 69 27 47 3 aact:AA00239|3end_hypothetical_protein_171418..171568_POSITIVE 262 51 11 51 3 aact:AA01827|3end_iron(III)_ABC_transporter,_periplasmic_binding_protein_1231407..1231557_POSITIVE 259 88 46 66 13 aact:AA01369|3end_rod_shape-determining_protein_925513..925663_POSITIVE 253 75 32 106 63 aact:AA01069|3end_translation_elongation_factor_(EF-Ts)_740700..740850_POSITIVE 239 50 2 66 3 aact:AA01250|3end_nadAB_transcriptional_regulator_851780..851930_POSITIVE 238 90 47 68 21 aact:AA00743|3end_conserved_hypothetical_protein_(possible_membrane_protein)_509947..510097_POSITIVE 234 87 45 136 89 aact:AA00998|3end_small_protein_A_homolog_699015..699165_POSITIVE 233 80 34 72 25 aact:AA02626|3end_conserved_hypothetical_protein_1829202..1829352_POSITIVE 232 79 32 104 36 aact:AA02545|3end_conserved_hypothetical_protein_1774221..1774371_POSITIVE 227 107 61 132 86 aact:AA00460|3end_ATP-dependent_ClpY-related_protease;_heat_shock_protein_322431..322581_POSITIVE 226 80 35 113 72 aact:AA01115|3end_carboxylesterase_767353..767503_POSITIVE 225 98 62 114 82 aact:AA02356|3end_hypothetical_protein_1614656..1614806_POSITIVE 225 78 33 123 69 aact:AA00744|3end_aldose_1-epimerase_(mutarotase)_511246..511396_POSITIVE 224 96 56 140 96 aact:AA01961|3end_lipid_A_export_ATP-binding/permease_protein_msbA_1326230..1326380_POSITIVE 223 97 53 128 78 aact:AA02108|3end_2-acylglycerophosphoethanolamine_acyltransferase;_acyl-acyl_carrier_protein_synthetase_1436643..1436793_POSITIVE 223 55 13 151 100 aact:AA00978|3end_conserved_hypothetical_protein_684585..684735_POSITIVE 223 78 32 83 27 aact:AA00882|3end_hypothetical_protein_613645..613795_POSITIVE 221 79 32 146 94 aact:AA01651|3end_hypothetical_protein_1120004..1120154_POSITIVE 221 79 33 65 16 aact:AA00933|3end_ribose_ABC_transporter,_ATP-binding_protein_645197..645347_POSITIVE 220 75 32 107 67 aact:AA02048|3end_galactitol_utilization_operon_repressor_1395579..1395729_POSITIVE