Origin IGS: taacatgcaaaattgtctgaaaaccgatcccttaaaactattatcaacaatcgccatgattttatttattaaagcagacttgtcgcttgctgtcatgaacttgtcttcataatttgctttatcgacagagaaatgctagtggtcagcacggtggcagactaatgctccggttgcggtaaaaagtccgctgatttgactgcaattaactgattcatctgtttattttttcattaatacttggtgttttgcacaaaggcaaacccacattttattgcattaaatagaatgcgactaaatttgcatgatacttttattcaaaatcacagggcttgaaatacttgagcaaatccgtaattttaattatgaaactggaaaattagctgctataatcctgcgttcgaagaaggatccccgtttttaagttacattaatggataaattttt .........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.........1.........2.........3.........4.........5.........6.........7.........8.........9 aaaaatttatccattaatgtaacttaaaaacggggatccttcttcgaacgcaggattatagcagctaattttccagtttcataattaaaattacggatttgctcaagtatttcaagccctgtgattttgaataaaagtatcatgcaaatttagtcgcattctatttaatgcaataaaatgtgggtttgcctttgtgcaaaacaccaagtattaatgaaaaaataaacagatgaatcagttaattgcagtcaaatcagcggactttttaccgcaaccggagcattagtctgccaccgtgctgaccactagcatttctctgtcgataaagcaaattatgaagacaagttcatgacagcaagcgacaagtctgctttaataaataaaatcatggcgattgttgataatagttttaagggatcggttttcagacaattttgcatgtta Mask Tandem Repeat Region ================================================ taacatgcaaaattgtctgaaaaccgatcccttaaaactattatcaacaatcgccatgattttatttattaaagcagacttgtcgcttgctgtcatgaacttgtcttcataatttgctttatcgacagagaaatgctagtggtcagcacggtggcagactaatgctccggttgcggtaaaaagtccgctgatttgactgcaattaactgattcatctgtttattttttcattaatacttggtgttttgcacaaaggcaaacccacattttattgcattaaatagaatgcgactaaatttgcatgatacttttattcaaaatcacagggcttgaaatacttgagcaaatccgtaattttaattatgaaactggaaaattagctgctataatcctgcgttcgaagaaggatccccgtttttaagttacattaatggataaattttt Find is-nt database================================================ Query_seq: AA00343:AA00344|AA00343:AA00344:conserved hypothetical protein (possible cytosolic protein):preprotein translocase secE subunit:->->:230714..231157 444 taacatgcaaaattgtctgaaaaccgatcccttaaaactattatcaacaatcgccatgattttatttattaaagcagacttgtcgcttgctgtcatgaacttgtcttcataatttgctttatcgacagagaaatgctagtggtcagcacggtggcagactaatgctccggttgcggtaaaaagtccgctgatttgactgcaattaactgattcatctgtttattttttcattaatacttggtgttttgcacaaaggcaaacccacattttattgcattaaatagaatgcgactaaatttgcatgatacttttattcaaaatcacagggcttgaaatacttgagcaaatccgtaattttaattatgaaactggaaaattagctgctataatcctgcgttcgaagaaggatccccgtttttaagttacattaatggataaattttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA00343:AA00344|AA00343:AA00344:conserved hypothetical protein (possible cytosolic protein):preprotein translocase secE subunit:->->:230714..231157 444 taacatgcaaaattgtctgaaaaccgatcccttaaaactattatcaacaatcgccatgattttatttattaaagcagacttgtcgcttgctgtcatgaacttgtcttcataatttgctttatcgacagagaaatgctagtggtcagcacggtggcagactaatgctccggttgcggtaaaaagtccgctgatttgactgcaattaactgattcatctgtttattttttcattaatacttggtgttttgcacaaaggcaaacccacattttattgcattaaatagaatgcgactaaatttgcatgatacttttattcaaaatcacagggcttgaaatacttgagcaaatccgtaattttaattatgaaactggaaaattagctgctataatcctgcgttcgaagaaggatccccgtttttaagttacattaatggataaattttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA00343:AA00344|AA00343:AA00344:conserved hypothetical protein (possible cytosolic protein):preprotein translocase secE subunit:->->:230714..231157 444 taacatgcaaaattgtctgaaaaccgatcccttaaaactattatcaacaatcgccatgattttatttattaaagcagacttgtcgcttgctgtcatgaacttgtcttcataatttgctttatcgacagagaaatgctagtggtcagcacggtggcagactaatgctccggttgcggtaaaaagtccgctgatttgactgcaattaactgattcatctgtttattttttcattaatacttggtgttttgcacaaaggcaaacccacattttattgcattaaatagaatgcgactaaatttgcatgatacttttattcaaaatcacagggcttgaaatacttgagcaaatccgtaattttaattatgaaactggaaaattagctgctataatcctgcgttcgaagaaggatccccgtttttaagttacattaatggataaattttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taacatgcaaaattgtctgaaaaccgatcccttaaaactattatcaacaatcgccatgattttatttattaaagcagacttgtcgcttgctgtcatgaacttgtcttcataatttgctttatcgacagagaaatgctagtggtcagcacggtggcagactaatgctccggttgcggtaaaaagtccgctgatttgactgcaattaactgattcatctgtttattttttcattaatacttggtgttttgcacaaaggcaaacccacattttattgcattaaatagaatgcgactaaatttgcatgatacttttattcaaaatcacagggcttgaaatacttgagcaaatccgtaattttaattatgaaactggaaaattagctgctataatcctgcgttcgaagaaggatccccgtttttaagttacattaatggataaattttt Predict ORF larger than 30AA ================================================ Protein_Len: 35 Strand: + Start: 5 End: 109 .... M Q N C L K T D P L K L L S T I A M I L F I K A D L S L A V M N L S S ............................................................................................................................................................................................................................................................................................................................................... Protein_Len: 31 Strand: + Start: 238 End: 330 ............................................................................................................................................................................................................................................. M V F C T K A N P H F I A L N R M R L N L H D T F I Q N H R A .................................................................................................................. Protein_Len: 41 Strand: + Start: 296 End: 418 ....................................................................................................................................................................................................................................................................................................... M C M I L L F K I T G L E I L E Q I R N F N Y E T G K L A A I I L R S K K D P R F .......................... Protein_Len: 32 Strand: - Start: 1 End: 96 L M C F Q R F V S G K F S N D V I A M I K N I L A S K D S A T M ............................................................................................................................................................................................................................................................................................................................................................ taacatgcaaaattgtctgaaaaccgatcccttaaaactattatcaacaatcgccatgattttatttattaaagcagacttgtcgcttgctgtcatgaacttgtcttcataatttgctttatcgacagagaaatgctagtggtcagcacggtggcagactaatgctccggttgcggtaaaaagtccgctgatttgactgcaattaactgattcatctgtttattttttcattaatacttggtgttttgcacaaaggcaaacccacattttattgcattaaatagaatgcgactaaatttgcatgatacttttattcaaaatcacagggcttgaaatacttgagcaaatccgtaattttaattatgaaactggaaaattagctgctataatcctgcgttcgaagaaggatccccgtttttaagttacattaatggataaattttt 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================================================ taacatgcaaaattgtctgaaaaccgatcccttaaaactattatcaacaatcgccatgattttatttattaaagcagacttgtcgcttgctgtcatgaacttgtcttcataatttgctttatcgacagagaaatgctagtggtcagcacggtggcagactaatgctccggttgcggtaaaaagtccgctgatttgactgcaattaactgattcatctgtttattttttcattaatacttggtgttttgcacaaaggcaaacccacattttattgcattaaatagaatgcgactaaatttgcatgatacttttattcaaaatcacagggcttgaaatacttgagcaaatccgtaattttaattatgaaactggaaaattagctgctataatcctgcgttcgaagaaggatccccgtttttaagttacattaatggataaattttt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA00343:AA00344|AA00343:AA00344:conserved hypothetical protein (possible cytosolic protein):preprotein translocase secE subunit:->->:230714..231157 444 taacatgcaaaattgtctgaaaaccgatcccttaaaactattatcaacaatcgccatgattttatttattaaagcagacttgtcgcttgctgtcatgaacttgtcttcataatttgctttatcgacagagaaatgctagtggtcagcacggtggcagactaatgctccggttgcggtaaaaagtccgctgatttgactgcaattaactgattcatctgtttattttttcattaatacttggtgttttgcacaaaggcaaacccacattttattgcattaaatagaatgcgactaaatttgcatgatacttttattcaaaatcacagggcttgaaatacttgagcaaatccgtaattttaattatgaaactggaaaattagctgctataatcctgcgttcgaagaaggatccccgtttttaagttacattaatggataaattttt Intra-Species Hit: Count: 1 Min: 1 Max: 444 Len: 444 Subject: aact_AA00343_AA00344|conserved hypothetical protein (possible cytosolic protein):preprotein translocase secE subunit|POSITIVE:POSITIVE|[230714,231157]|444 HSP 1 e-value: 0.0 bit: 880.0 Len: 444 Query Start:1 Query End:444 Subject Strand: POSITIVE Subject Start: 1 Subject End: 444 taacatgcaaaattgtctgaaaaccgatcccttaaaactattatcaacaatcgccatgattttatttattaaagcagacttgtcgcttgctgtcatgaacttgtcttcataatttgctttatcgacagagaaatgctagtggtcagcacggtggcagactaatgctccggttgcggtaaaaagtccgctgatttgactgcaattaactgattcatctgtttattttttcattaatacttggtgttttgcacaaaggcaaacccacattttattgcattaaatagaatgcgactaaatttgcatgatacttttattcaaaatcacagggcttgaaatacttgagcaaatccgtaattttaattatgaaactggaaaattagctgctataatcctgcgttcgaagaaggatccccgtttttaagttacattaatggataaattttt taacatgcaaaattgtctgaaaaccgatcccttaaaactattatcaacaatcgccatgattttatttattaaagcagacttgtcgcttgctgtcatgaacttgtcttcataatttgctttatcgacagagaaatgctagtggtcagcacggtggcagactaatgctccggttgcggtaaaaagtccgctgatttgactgcaattaactgattcatctgtttattttttcattaatacttggtgttttgcacaaaggcaaacccacattttattgcattaaatagaatgcgactaaatttgcatgatacttttattcaaaatcacagggcttgaaatacttgagcaaatccgtaattttaattatgaaactggaaaattagctgctataatcctgcgttcgaagaaggatccccgtttttaagttacattaatggataaattttt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAACAUGCAAAAUUGUCUGAAAACCGAUCCCUUAAAACUAUUAUCAACAAUCGCCAUGAUUUUAUUUAUUAAAGCAGACUUGUCGCUUGCUGUCAUGAACUUGUCUUCAUAAUUUGCUUUAUCGACAGAGAAAUGCUAGUGGUCAGCACGGUGGCAGACUAAUGCUCCGGUUGCGGUAAAAAGUCCGCUGAUUUGACUGCAAUUAACUGAUUCAUCUGUUUAUUUUUUCAUUAAUACUUGGUGUUUUGCACAAAGGCAAACCCACAUUUUAUUGCAUUAAAUAGAAUGCGACUAAAUUUGCAUGAUACUUUUAUUCAAAAUCACAGGGCUUGAAAUACUUGAGCAAAUCCGUAAUUUUAAUUAUGAAACUGGAAAAUUAGCUGCUAUAAUCCUGCGUUCGAAGAAGGAUCCCCGUUUUUAAGUUACAUUAAUGGAUAAAUUUUU ...((((....(((((.(((.......................))))))))...))))..((((((((((((.((((..((((.((..(((((((((.....(((.......((((((((.......((((((.((..((((((((..(((.((((......))))))).(((((((...(((((....))))).)))))))....)))).))))..))....))))))...........(((.....))).))))))))....(((((((((......))))))))).)))........))))))..............((.(((.(((..(.....)..))).....((((((....))))))...))))).....))).)).))))..))))....(((((.((....)).)))))........))))))))))))..... (-93.32) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAAAAUUUAUCCAUUAAUGUAACUUAAAAACGGGGAUCCUUCUUCGAACGCAGGAUUAUAGCAGCUAAUUUUCCAGUUUCAUAAUUAAAAUUACGGAUUUGCUCAAGUAUUUCAAGCCCUGUGAUUUUGAAUAAAAGUAUCAUGCAAAUUUAGUCGCAUUCUAUUUAAUGCAAUAAAAUGUGGGUUUGCCUUUGUGCAAAACACCAAGUAUUAAUGAAAAAAUAAACAGAUGAAUCAGUUAAUUGCAGUCAAAUCAGCGGACUUUUUACCGCAACCGGAGCAUUAGUCUGCCACCGUGCUGACCACUAGCAUUUCUCUGUCGAUAAAGCAAAUUAUGAAGACAAGUUCAUGACAGCAAGCGACAAGUCUGCUUUAAUAAAUAAAAUCAUGGCGAUUGUUGAUAAUAGUUUUAAGGGAUCGGUUUUCAGACAAUUUUGCAUGUUA .....................((((.....((((((....))))))....(((((((((((..(((........(((((........)))))...((..(((....)))..)).))).))))))))))).....))))..((((((((....(((((.(((...(((((((.........(((.(((((......)))))...))).))))))).)))...((..(((((.(((...((((....(((.((.....(((((((.....(((....)))......))))))).....))))).....))))..))))))))..))...((...(((((((......)))))))..))..)))))..(((((.((((.....)))).......(((((.((.............)).))))).....)))))...))))))))... (-91.82) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 385 189 141 63 15 aact:AA01339|5end_transcriptional_regulator,_AcrR/TetR_family_905154..905384_POSITIVE 383 188 141 67 7 aact:AA00377|5end_acetyl-CoA_acetyltransferase_(Beta-ketothiolase,3-ketoacyl-CoA_thiolase)_253042..253272_POSITIVE 377 187 141 112 55 aact:AA00682|5end_S-adenosylmethionine-dependent_methyltransferase_466322..466552_POSITIVE 375 175 131 174 132 aact:AA02553|5end_acylphosphatase_1779321..1779551_POSITIVE 372 190 141 198 137 aact:AA01408|5end_conserved_hypothetical_protein_950191..950421_POSITIVE 366 200 152 197 144 aact:AA02958|5end_3-phenylpropionic_acid_transporter_2069380..2069610_POSITIVE 365 189 141 76 38 aact:AA01066|5end_conserved_hypothetical_protein_738380..738610_POSITIVE 364 156 123 44 10 aact:AA01457|5end_D-xylose_ABC_transporter,_membrane_spanning_protein_977604..977834_POSITIVE 359 177 135 141 94 aact:AA01902|5end_conserved_hypothetical_protein_1282997..1283227_POSITIVE 357 190 141 191 136 aact:AA02407|5end_thymidine_kinase_1652666..1652896_POSITIVE 355 189 148 190 146 aact:AA01187|5end_conserved_hypothetical_protein_813331..813561_POSITIVE 353 190 146 106 61 aact:AA01995|5end_conserved_hypothetical_protein_(possible_chorismate_mutase)_1355120..1355350_POSITIVE 351 177 135 72 35 aact:AA01614|5end_D-isomer_specific_2-hydroxyacid_dehydrogenase_family_protein_1089698..1089928_POSITIVE 349 209 166 193 158 aact:AA02337|5end_DNA_mismatch_repair_protein_1597350..1597580_POSITIVE 345 188 142 187 137 aact:AA00715|5end_[2Fe-2S]_ferredoxin_490632..490862_POSITIVE 344 177 131 190 144 aact:AA00838|5end_UDP-N-acetylmuramoylalanine--D-glutamate_ligase_577522..577752_POSITIVE 342 209 165 226 183 aact:AA00537|5end_conserved_hypothetical_protein_367992..368222_POSITIVE 340 178 133 56 3 aact:AA00171|5end_DNA-binding_protein_121485..121715_POSITIVE 339 189 143 133 82 aact:AA00240|5end_hypothetical_protein_171390..171620_POSITIVE 338 177 134 43 2 aact:AA02334|5end_outer_membrane_protein_P1_1595307..1595537_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 364 156 123 37 3 aact:AA01456|3end_D-xylose_ABC_transporter,_ATP-binding_protein_977677..977827_POSITIVE 349 168 123 145 95 aact:AA00143|3end_gluconate_permease_(GntP_family)_103796..103946_POSITIVE 339 189 143 81 30 aact:AA00239|3end_hypothetical_protein_171418..171568_POSITIVE 335 190 141 59 12 aact:AA01167|3end_glucose-6-phosphate_1-dehydrogenase_801067..801217_POSITIVE 331 188 146 148 112 aact:AA01994|3end_chorismate_mutase;_prephenate_dehydrogenase_1355251..1355401_POSITIVE 331 188 146 80 28 aact:AA00329|3end_molybdopterin-guanine_dinucleotide_biosynthesis_protein_223347..223497_POSITIVE 330 176 134 63 19 aact:AA02552|3end_iron_(chelated)_ABC_transporter,_permease_protein_1779420..1779570_POSITIVE 328 177 139 40 10 aact:AA01839|3end_conserved_hypothetical_protein_(possible_transcriptional_regulator)_1237291..1237441_POSITIVE 325 188 149 107 69 aact:AA02970|3end_tyrosine_phenol-lyase_2077391..2077541_POSITIVE 325 200 151 70 31 aact:AA01965|3end_poly(A)_polymerase_1331021..1331171_POSITIVE 323 200 151 91 25 aact:AA00373|3end_CoA-transferase_(beta)_251755..251905_POSITIVE 321 180 133 54 1 aact:AA01198|3end_hypothetical_protein_822051..822201_POSITIVE 320 188 149 46 1 aact:AA00374|3end_short-chain_fatty_acids_transporter_253101..253251_POSITIVE 320 177 135 130 76 aact:AA00349|3end_hypothetical_protein_233527..233677_POSITIVE 319 177 133 146 91 aact:AA00269|3end_3-oxoacyl-(acyl-carrier-protein)_reductase/short-chain_alcohol_dehydrogenase_189413..189563_POSITIVE 317 190 142 147 100 aact:AA00380|3end_carbamate_kinase_257537..257687_POSITIVE 313 177 141 56 12 aact:AA02684|3end_hydrogenase_4_membrane_subunit_1871612..1871762_POSITIVE 313 190 150 141 97 aact:AA01782|3end_molybdenum_transport_protein;_transcriptional_regulator_1203735..1203885_POSITIVE 313 173 132 60 14 aact:AA00835|3end_UDP-N-acetylglucosamine-N-acetylmuramyl-(pentapep_tide)_576353..576503_POSITIVE 312 176 133 147 104 aact:AA02695|3end_hydrogenase-3_component_G_1879418..1879568_POSITIVE