Origin IGS: tttttcctcgtattttactaaataaactatttattctttctttaaatgaatataaaaccagtattcccaaatagatataaaatatttgcaagtcaaatatatcttatagaattcttgctataaaatatattaacaggcaaaaaagagtaaattgtatgaaatttttcacttgttttcctcaatataagtaatattgtatttaataatcgtctatattctaattcaagatattccatctgagctttattgatgccaaattaattcgacgactgttggctgaaaccacaaaagcaaacatcgcaaatgcggataataaagtagctaataacacaatgaaacccctatcaattatggcta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tagccataattgataggggtttcattgtgttattagctactttattatccgcatttgcgatgtttgcttttgtggtttcagccaacagtcgtcgaattaatttggcatcaataaagctcagatggaatatcttgaattagaatatagacgattattaaatacaatattacttatattgaggaaaacaagtgaaaaatttcatacaatttactcttttttgcctgttaatatattttatagcaagaattctataagatatatttgacttgcaaatattttatatctatttgggaatactggttttatattcatttaaagaaagaataaatagtttatttagtaaaatacgaggaaaaa Mask Tandem Repeat Region ================================================ tttttcctcgtattttactaaataaactatttattctttctttaaatgaatataaaaccagtattcccaaatagatataaaatatttgcaagtcaaatatatcttatagaattcttgctataaaatatattaacaggcaaaaaagagtaaattgtatgaaatttttcacttgttttcctcaatataagtaatattgtatttaataatcgtctatattctaattcaagatattccatctgagctttattgatgccaaattaattcgacgactgttggctgaaaccacaaaagcaaacatcgcaaatgcggataataaagtagctaataacacaatgaaacccctatcaattatggcta Find is-nt database================================================ Query_seq: AA01086:AA01087|AA01086:AA01087:hypothetical protein:DNA polymerase III, delta subunit:->->:751652..752008 357 tttttcctcgtattttactaaataaactatttattctttctttaaatgaatataaaaccagtattcccaaatagatataaaatatttgcaagtcaaatatatcttatagaattcttgctataaaatatattaacaggcaaaaaagagtaaattgtatgaaatttttcacttgttttcctcaatataagtaatattgtatttaataatcgtctatattctaattcaagatattccatctgagctttattgatgccaaattaattcgacgactgttggctgaaaccacaaaagcaaacatcgcaaatgcggataataaagtagctaataacacaatgaaacccctatcaattatggcta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA01086:AA01087|AA01086:AA01087:hypothetical protein:DNA polymerase III, delta subunit:->->:751652..752008 357 tttttcctcgtattttactaaataaactatttattctttctttaaatgaatataaaaccagtattcccaaatagatataaaatatttgcaagtcaaatatatcttatagaattcttgctataaaatatattaacaggcaaaaaagagtaaattgtatgaaatttttcacttgttttcctcaatataagtaatattgtatttaataatcgtctatattctaattcaagatattccatctgagctttattgatgccaaattaattcgacgactgttggctgaaaccacaaaagcaaacatcgcaaatgcggataataaagtagctaataacacaatgaaacccctatcaattatggcta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA01086:AA01087|AA01086:AA01087:hypothetical protein:DNA polymerase III, delta subunit:->->:751652..752008 357 tttttcctcgtattttactaaataaactatttattctttctttaaatgaatataaaaccagtattcccaaatagatataaaatatttgcaagtcaaatatatcttatagaattcttgctataaaatatattaacaggcaaaaaagagtaaattgtatgaaatttttcacttgttttcctcaatataagtaatattgtatttaataatcgtctatattctaattcaagatattccatctgagctttattgatgccaaattaattcgacgactgttggctgaaaccacaaaagcaaacatcgcaaatgcggataataaagtagctaataacacaatgaaacccctatcaattatggcta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tttttcctcgtattttactaaataaactatttattctttctttaaatgaatataaaaccagtattcccaaatagatataaaatatttgcaagtcaaatatatcttatagaattcttgctataaaatatattaacaggcaaaaaagagtaaattgtatgaaatttttcacttgttttcctcaatataagtaatattgtatttaataatcgtctatattctaattcaagatattccatctgagctttattgatgccaaattaattcgacgactgttggctgaaaccacaaaagcaaacatcgcaaatgcggataataaagtagctaataacacaatgaaacccctatcaattatggcta Predict ORF larger than 30AA ================================================ Protein_Len: 35 Strand: + Start: 84 End: 188 ................................................................................... M C K S N I S Y R I L A I K Y I N R Q K R V N C M K F F T C F P Q Y K ......................................................................................................................................................................... Protein_Len: 43 Strand: + Start: 228 End: 356 ................................................................................................................................................................................................................................... M F H L S F I D A K L I R R L L A E T T K A N I A N A D N K V A N N T M K P L S I M A . Protein_Len: 44 Strand: - Start: 221 End: 352 ............................................................................................................................................................................................................................ N L I N W R L K I S A L N I R R S N A S V V F A F M A F A S L L T A L L V I F G R D I M ..... Protein_Len: 52 Strand: - Start: 96 End: 251 ............................................................................................... I Y R I S N K S Y F I N V P L F S Y I T H F K E S T K R L I L L I T N L L R R Y E L E L Y E M Q A K N M .......................................................................................................... Protein_Len: 33 Strand: - Start: 2 End: 100 . K G R I K S F L S N I R E K F S Y L V L I G L Y I Y F I Q L D F M ................................................................................................................................................................................................................................................................. tttttcctcgtattttactaaataaactatttattctttctttaaatgaatataaaaccagtattcccaaatagatataaaatatttgcaagtcaaatatatcttatagaattcttgctataaaatatattaacaggcaaaaaagagtaaattgtatgaaatttttcacttgttttcctcaatataagtaatattgtatttaataatcgtctatattctaattcaagatattccatctgagctttattgatgccaaattaattcgacgactgttggctgaaaccacaaaagcaaacatcgcaaatgcggataataaagtagctaataacacaatgaaacccctatcaattatggcta 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================================================ tttttcctcgtattttactaaataaactatttattctttctttaaatgaatataaaaccagtattcccaaatagatataaaatatttgcaagtcaaatatatcttatagaattcttgctataaaatatattaacaggcaaaaaagagtaaattgtatgaaatttttcacttgttttcctcaatataagtaatattgtatttaataatcgtctatattctaattcaagatattccatctgagctttattgatgccaaattaattcgacgactgttggctgaaaccacaaaagcaaacatcgcaaatgcggataataaagtagctaataacacaatgaaacccctatcaattatggcta Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 50 HP_score: -3.8 Tail_Score: -3.48738 Start: 180 End: 196 Full_Region: TTCACTTGTTTTCCT CAATAT AAGTA ATATTG TATTTAATAATCGTC ...................................................................................................................................................................................CAATATAAGTAATATTG................................................................................................................................................................. Find igs database================================================ Query_seq: AA01086:AA01087|AA01086:AA01087:hypothetical protein:DNA polymerase III, delta subunit:->->:751652..752008 357 tttttcctcgtattttactaaataaactatttattctttctttaaatgaatataaaaccagtattcccaaatagatataaaatatttgcaagtcaaatatatcttatagaattcttgctataaaatatattaacaggcaaaaaagagtaaattgtatgaaatttttcacttgttttcctcaatataagtaatattgtatttaataatcgtctatattctaattcaagatattccatctgagctttattgatgccaaattaattcgacgactgttggctgaaaccacaaaagcaaacatcgcaaatgcggataataaagtagctaataacacaatgaaacccctatcaattatggcta Intra-Species Hit: Count: 1 Min: 1 Max: 357 Len: 357 Subject: aact_AA01086_AA01087|hypothetical protein:DNA polymerase III, delta subunit|POSITIVE:POSITIVE|[751652,752008]|357 HSP 1 e-value: 0.0 bit: 708.0 Len: 357 Query Start:1 Query End:357 Subject Strand: POSITIVE Subject Start: 1 Subject End: 357 tttttcctcgtattttactaaataaactatttattctttctttaaatgaatataaaaccagtattcccaaatagatataaaatatttgcaagtcaaatatatcttatagaattcttgctataaaatatattaacaggcaaaaaagagtaaattgtatgaaatttttcacttgttttcctcaatataagtaatattgtatttaataatcgtctatattctaattcaagatattccatctgagctttattgatgccaaattaattcgacgactgttggctgaaaccacaaaagcaaacatcgcaaatgcggataataaagtagctaataacacaatgaaacccctatcaattatggcta tttttcctcgtattttactaaataaactatttattctttctttaaatgaatataaaaccagtattcccaaatagatataaaatatttgcaagtcaaatatatcttatagaattcttgctataaaatatattaacaggcaaaaaagagtaaattgtatgaaatttttcacttgttttcctcaatataagtaatattgtatttaataatcgtctatattctaattcaagatattccatctgagctttattgatgccaaattaattcgacgactgttggctgaaaccacaaaagcaaacatcgcaaatgcggataataaagtagctaataacacaatgaaacccctatcaattatggcta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUUUCCUCGUAUUUUACUAAAUAAACUAUUUAUUCUUUCUUUAAAUGAAUAUAAAACCAGUAUUCCCAAAUAGAUAUAAAAUAUUUGCAAGUCAAAUAUAUCUUAUAGAAUUCUUGCUAUAAAAUAUAUUAACAGGCAAAAAAGAGUAAAUUGUAUGAAAUUUUUCACUUGUUUUCCUCAAUAUAAGUAAUAUUGUAUUUAAUAAUCGUCUAUAUUCUAAUUCAAGAUAUUCCAUCUGAGCUUUAUUGAUGCCAAAUUAAUUCGACGACUGUUGGCUGAAACCACAAAAGCAAACAUCGCAAAUGCGGAUAAUAAAGUAGCUAAUAACACAAUGAAACCCCUAUCAAUUAUGGCUA .......(((((.............((.(((((((((((((......((((((.......))))))......))).........(((((..((..(((((((.((((((........)))))).))))))).))..))))).)))))))))).)).(((........((((((..........))))))..((((((.........(((((..........((((.(((.....)))))))....((((((.....))))))..))))).(((((((((...........(((...........)))...........)))))))))..)))))).........)))..)))))... (-53.85) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGCCAUAAUUGAUAGGGGUUUCAUUGUGUUAUUAGCUACUUUAUUAUCCGCAUUUGCGAUGUUUGCUUUUGUGGUUUCAGCCAACAGUCGUCGAAUUAAUUUGGCAUCAAUAAAGCUCAGAUGGAAUAUCUUGAAUUAGAAUAUAGACGAUUAUUAAAUACAAUAUUACUUAUAUUGAGGAAAACAAGUGAAAAAUUUCAUACAAUUUACUCUUUUUUGCCUGUUAAUAUAUUUUAUAGCAAGAAUUCUAUAAGAUAUAUUUGACUUGCAAAUAUUUUAUAUCUAUUUGGGAAUACUGGUUUUAUAUUCAUUUAAAGAAAGAAUAAAUAGUUUAUUUAGUAAAAUACGAGGAAAAA ...................((((.(((((((((((((((.((((((..(((((...((((...))))...))))).(((.(((((................)))))....(((((((.(((.((.....(((..(((.(((.((((((.......(((((.((((((.....))))))..........(((((....)))))...)))))......(((((..(((((((((((((((((........)))))))))))).)))))..)))))...))))))))))))..))).))))))))))))...........)))..)))))))))).....)))))..)))))).)))).. (-64.79) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 312 305 266 150 105 aact:AA00576|5end_conserved_hypothetical_protein_(possible_translation_factor)_394020..394250_POSITIVE 310 310 261 167 121 aact:AA02439|5end_integral_membrane_protein;_possible_ABC_transporter_permease_1683902..1684132_POSITIVE 291 309 261 171 122 aact:AA02705|5end_hypothetical_protein_1886717..1886947_POSITIVE 280 309 263 114 64 aact:AA00595|5end_hypothetical_protein_407194..407424_POSITIVE 279 339 291 103 52 aact:AA01273|5end_hypothetical_protein_864362..864592_POSITIVE 275 310 264 221 169 aact:AA01107|5end_adenylosuccinate_lyase_762310..762540_POSITIVE 271 347 304 198 162 aact:AA01347|5end_conserved_hypothetical_protein_913209..913439_POSITIVE 270 284 249 40 5 aact:AA02267|5end_conserved_hypothetical_protein_1545416..1545646_POSITIVE 268 288 248 91 52 aact:AA01090|5end_leucyl-tRNA_synthetase,_leucyl-tRNA_ligase_753548..753778_POSITIVE 265 309 264 66 29 aact:AA02250|5end_possible_cytochrome_c-type_protein_1530125..1530355_POSITIVE 265 309 263 208 169 aact:AA00790|5end_recombination_DNA_repair_protein_542455..542685_POSITIVE 263 306 261 194 141 aact:AA02022|5end_hypothetical_protein_1376582..1376812_POSITIVE 260 322 281 58 11 aact:AA02714|5end_paraquat-inducible_protein_PqiA_homolog_1895807..1896037_POSITIVE 257 307 263 209 170 aact:AA01688|5end_conserved_hypothetical_protein;_possible_membrane_protein_1139635..1139865_POSITIVE 257 310 264 63 10 aact:AA01258|5end_TRK_system_potassium_uptake_protein_852891..853121_POSITIVE 256 310 264 197 146 aact:AA01241|5end_30S_ribosomal_protein_S4_845294..845524_POSITIVE 255 308 267 138 95 aact:AA01335|5end_primosomal_protein_N'_901993..902223_POSITIVE 255 309 261 145 101 aact:AA01119|5end_hypothetical_protein_769291..769521_POSITIVE 254 307 264 175 137 aact:AA02196|5end_oxaloacetate_decarboxylase_beta_chain_1496308..1496538_POSITIVE 250 309 261 227 176 aact:AA02961|5end_pyrroline-5-carboxylate_reductase_2070785..2071015_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 312 305 266 143 98 aact:AA00575|3end_shikimate_5-dehydrogenase_394093..394243_POSITIVE 280 309 263 126 76 aact:AA00592|3end_conserved_hypothetical_protein_(membrane/transport_protein)_407286..407436_POSITIVE 268 288 248 60 21 aact:AA01089|3end_hypothetical_protein_753597..753747_POSITIVE 265 310 263 97 56 aact:AA02545|3end_conserved_hypothetical_protein_1774221..1774371_POSITIVE 263 306 261 133 80 aact:AA02021|3end_anaerobic_glycerol-3-phosphate_dehydrogenase_1376601..1376751_POSITIVE 255 309 261 149 105 aact:AA01117|3end_signal_recognition_particle_protein_54_(GTP-binding_export_factor)_769375..769525_POSITIVE 250 310 262 142 106 aact:AA02950|3end_isoleucyl-tRNA_synthetase_2065113..2065263_POSITIVE 245 286 241 47 14 aact:AA01111|3end_conserved_hypothetical_protein_764973..765123_POSITIVE 245 90 45 95 45 aact:AA00026|3end_conserved_hypothetical_protein_20542..20692_POSITIVE 240 309 262 67 20 aact:AA02952|3end_lipoprotein_signal_peptidase_2065687..2065837_POSITIVE 239 309 264 148 107 aact:AA00408|3end_SUN_protein_(FMU_protein)_273688..273838_POSITIVE 236 280 233 115 72 aact:AA01472|3end_hypothetical_protein_989158..989308_POSITIVE 235 310 262 56 13 aact:AA02366|3end_hypothetical_protein_1623252..1623402_POSITIVE 234 300 253 149 102 aact:AA01687|3end_TldD_protein_1139661..1139811_POSITIVE 234 280 239 143 97 aact:AA01097|3end_conserved_hypothetical_protein_757685..757835_POSITIVE 230 309 261 117 71 aact:AA01679|3end_aspartate-semialdehyde_dehydrogenase;_PTS_system_enzyme_II_A_component_1135236..1135386_POSITIVE 230 309 261 69 3 aact:AA00702|3end_conserved_hypothetical_protein_483848..483998_POSITIVE 229 307 263 146 93 aact:AA01889|3end_conserved_hypothetical_protein_(possible_permease)_1274590..1274740_POSITIVE 229 288 250 117 91 aact:AA00982|3end_aldo-keto_reductase_687583..687733_POSITIVE 228 310 262 138 70 aact:AA02196|3end_oxaloacetate_decarboxylase_beta_chain_1497692..1497842_POSITIVE