Origin IGS: taagaggtaaaagtgcagtagaaatttatctgttttttctaccgcactttctttccgctatttatgaatattcatctcttagagtgaatccggcctgttcggtatcatgcacttgcattttccggttttccggctaagtattgatacctccacaggtaaactcactcaaataatcgtcataattttgtgatcttctgcacattttacaaaaaatatgtaagtatcttgactaaattgtttgcaaagaaaaattacttacattattgttaaataatagttatcaatatgtaatataaaaagaggtaatacca .........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 tggtattacctctttttatattacatattgataactattatttaacaataatgtaagtaatttttctttgcaaacaatttagtcaagatacttacatattttttgtaaaatgtgcagaagatcacaaaattatgacgattatttgagtgagtttacctgtggaggtatcaatacttagccggaaaaccggaaaatgcaagtgcatgataccgaacaggccggattcactctaagagatgaatattcataaatagcggaaagaaagtgcggtagaaaaaacagataaatttctactgcacttttacctctta Mask Tandem Repeat Region ================================================ taagaggtaaaagtgcagtagaaatttatctgttttttctaccgcactttctttccgctatttatgaatattcatctcttagagtgaatccggcctgttcggtatcatgcacttgcattttccggttttccggctaagtattgatacctccacaggtaaactcactcaaataatcgtcataattttgtgatcttctgcacattttacaaaaaatatgtaagtatcttgactaaattgtttgcaaagaaaaattacttacattattgttaaataatagttatcaatatgtaatataaaaagaggtaatacca Find is-nt database================================================ Query_seq: AA02748:AA02749|AA02748:AA02749:conserved hypothetical protein:L-lactate dehydrogenase:->->:1925643..1925953 311 taagaggtaaaagtgcagtagaaatttatctgttttttctaccgcactttctttccgctatttatgaatattcatctcttagagtgaatccggcctgttcggtatcatgcacttgcattttccggttttccggctaagtattgatacctccacaggtaaactcactcaaataatcgtcataattttgtgatcttctgcacattttacaaaaaatatgtaagtatcttgactaaattgtttgcaaagaaaaattacttacattattgttaaataatagttatcaatatgtaatataaaaagaggtaatacca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA02748:AA02749|AA02748:AA02749:conserved hypothetical protein:L-lactate dehydrogenase:->->:1925643..1925953 311 taagaggtaaaagtgcagtagaaatttatctgttttttctaccgcactttctttccgctatttatgaatattcatctcttagagtgaatccggcctgttcggtatcatgcacttgcattttccggttttccggctaagtattgatacctccacaggtaaactcactcaaataatcgtcataattttgtgatcttctgcacattttacaaaaaatatgtaagtatcttgactaaattgtttgcaaagaaaaattacttacattattgttaaataatagttatcaatatgtaatataaaaagaggtaatacca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA02748:AA02749|AA02748:AA02749:conserved hypothetical protein:L-lactate dehydrogenase:->->:1925643..1925953 311 taagaggtaaaagtgcagtagaaatttatctgttttttctaccgcactttctttccgctatttatgaatattcatctcttagagtgaatccggcctgttcggtatcatgcacttgcattttccggttttccggctaagtattgatacctccacaggtaaactcactcaaataatcgtcataattttgtgatcttctgcacattttacaaaaaatatgtaagtatcttgactaaattgtttgcaaagaaaaattacttacattattgttaaataatagttatcaatatgtaatataaaaagaggtaatacca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taagaggtaaaagtgcagtagaaatttatctgttttttctaccgcactttctttccgctatttatgaatattcatctcttagagtgaatccggcctgttcggtatcatgcacttgcattttccggttttccggctaagtattgatacctccacaggtaaactcactcaaataatcgtcataattttgtgatcttctgcacattttacaaaaaatatgtaagtatcttgactaaattgtttgcaaagaaaaattacttacattattgttaaataatagttatcaatatgtaatataaaaagaggtaatacca Predict ORF larger than 30AA ================================================ Protein_Len: 37 Strand: + Start: 24 End: 134 ....................... M Y L F F L P H F L S A I Y E Y S S L R V N P A C S V S C T C I F R F S G ................................................................................................................................................................................. Protein_Len: 31 Strand: + Start: 95 End: 187 .............................................................................................. M F G I M H L H F P V F R L S I D T S T G K L T Q I I V I I L ............................................................................................................................ taagaggtaaaagtgcagtagaaatttatctgttttttctaccgcactttctttccgctatttatgaatattcatctcttagagtgaatccggcctgttcggtatcatgcacttgcattttccggttttccggctaagtattgatacctccacaggtaaactcactcaaataatcgtcataattttgtgatcttctgcacattttacaaaaaatatgtaagtatcttgactaaattgtttgcaaagaaaaattacttacattattgttaaataatagttatcaatatgtaatataaaaagaggtaatacca 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================================================ taagaggtaaaagtgcagtagaaatttatctgttttttctaccgcactttctttccgctatttatgaatattcatctcttagagtgaatccggcctgttcggtatcatgcacttgcattttccggttttccggctaagtattgatacctccacaggtaaactcactcaaataatcgtcataattttgtgatcttctgcacattttacaaaaaatatgtaagtatcttgactaaattgtttgcaaagaaaaattacttacattattgttaaataatagttatcaatatgtaatataaaaagaggtaatacca Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA02748:AA02749|AA02748:AA02749:conserved hypothetical protein:L-lactate dehydrogenase:->->:1925643..1925953 311 taagaggtaaaagtgcagtagaaatttatctgttttttctaccgcactttctttccgctatttatgaatattcatctcttagagtgaatccggcctgttcggtatcatgcacttgcattttccggttttccggctaagtattgatacctccacaggtaaactcactcaaataatcgtcataattttgtgatcttctgcacattttacaaaaaatatgtaagtatcttgactaaattgtttgcaaagaaaaattacttacattattgttaaataatagttatcaatatgtaatataaaaagaggtaatacca Intra-Species Hit: Count: 1 Min: 1 Max: 311 Len: 311 Subject: aact_AA02748_AA02749|conserved hypothetical protein:L-lactate dehydrogenase|POSITIVE:POSITIVE|[1925643,1925953]|311 HSP 1 e-value: 1.0E-175 bit: 617.0 Len: 311 Query Start:1 Query End:311 Subject Strand: POSITIVE Subject Start: 1 Subject End: 311 taagaggtaaaagtgcagtagaaatttatctgttttttctaccgcactttctttccgctatttatgaatattcatctcttagagtgaatccggcctgttcggtatcatgcacttgcattttccggttttccggctaagtattgatacctccacaggtaaactcactcaaataatcgtcataattttgtgatcttctgcacattttacaaaaaatatgtaagtatcttgactaaattgtttgcaaagaaaaattacttacattattgttaaataatagttatcaatatgtaatataaaaagaggtaatacca taagaggtaaaagtgcagtagaaatttatctgttttttctaccgcactttctttccgctatttatgaatattcatctcttagagtgaatccggcctgttcggtatcatgcacttgcattttccggttttccggctaagtattgatacctccacaggtaaactcactcaaataatcgtcataattttgtgatcttctgcacattttacaaaaaatatgtaagtatcttgactaaattgtttgcaaagaaaaattacttacattattgttaaataatagttatcaatatgtaatataaaaagaggtaatacca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAGAGGUAAAAGUGCAGUAGAAAUUUAUCUGUUUUUUCUACCGCACUUUCUUUCCGCUAUUUAUGAAUAUUCAUCUCUUAGAGUGAAUCCGGCCUGUUCGGUAUCAUGCACUUGCAUUUUCCGGUUUUCCGGCUAAGUAUUGAUACCUCCACAGGUAAACUCACUCAAAUAAUCGUCAUAAUUUUGUGAUCUUCUGCACAUUUUACAAAAAAUAUGUAAGUAUCUUGACUAAAUUGUUUGCAAAGAAAAAUUACUUACAUUAUUGUUAAAUAAUAGUUAUCAAUAUGUAAUAUAAAAAGAGGUAAUACCA ((((((((.(((((((.(((((((...........))))))).)))))))........((((....))))...))))))))((((((.....((((((..(((((((...(((((......((((....)))).)))))..)))))))...))))))....))))))........((((((....))))))(((((.......(((((......((((((((((((((((......)))....)))).....)))))))))(((((.(((.......))).)))))))))).......)))))........ (-74.24) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGGUAUUACCUCUUUUUAUAUUACAUAUUGAUAACUAUUAUUUAACAAUAAUGUAAGUAAUUUUUCUUUGCAAACAAUUUAGUCAAGAUACUUACAUAUUUUUUGUAAAAUGUGCAGAAGAUCACAAAAUUAUGACGAUUAUUUGAGUGAGUUUACCUGUGGAGGUAUCAAUACUUAGCCGGAAAACCGGAAAAUGCAAGUGCAUGAUACCGAACAGGCCGGAUUCACUCUAAGAGAUGAAUAUUCAUAAAUAGCGGAAAGAAAGUGCGGUAGAAAAAACAGAUAAAUUUCUACUGCACUUUUACCUCUUA .((((...((.((.(((((.((((((((((.(((.......))).)))).))))))...((((.(((((............((((.(((........((((((((((.....))))))))))......))).))))........((((((((((.(((((...((((((.........((((....))))...((((....))))))))))..)))))..))))))))))..))))).))))....))))).)).))....(((((((((((((((...........)))))))))))))))))))..... (-85.44) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 457 50 1 140 92 aact:AA03010|5end_thiophene_and_furan_oxidation_protein_2101102..2101332_POSITIVE 418 58 11 165 111 aact:AA01640|5end_restriction_enzyme_type_I_helicase_subunit_1109230..1109460_POSITIVE 418 58 11 71 17 aact:AA01639|5end_hypothetical_protein_1109136..1109366_POSITIVE 414 50 10 151 110 aact:AA02405|5end_conserved_hypothetical_protein_1652430..1652660_POSITIVE 414 50 10 99 58 aact:AA02404|5end_hypothetical_protein_1652378..1652608_POSITIVE 400 134 93 67 19 aact:AA01370|5end_rod_shape-determining_protein_925436..925666_POSITIVE 388 50 6 149 104 aact:AA02872|5end_conserved_hypothetical_protein_2015539..2015769_POSITIVE 386 58 11 170 116 aact:AA02993|5end_6-phosphofructokinase_2091766..2091996_POSITIVE 371 150 101 223 158 aact:AA02267|5end_conserved_hypothetical_protein_1545416..1545646_POSITIVE 371 56 11 167 115 aact:AA00632|5end_inner_membrane_protein_ImpA_434127..434357_POSITIVE 368 50 6 47 1 aact:AA01798|5end_hypothetical_protein_1212070..1212300_POSITIVE 362 74 35 170 122 aact:AA02695|5end_hydrogenase-3_component_G_1878565..1878795_POSITIVE 362 56 11 165 113 aact:AA01407|5end_outer_membrane_antigenic_lipoprotein_b_precursor_949005..949235_POSITIVE 362 50 2 142 87 aact:AA00497|5end_hexose_phosphate_transport_system_regulatory_protein;_regulator_of_uhpT_expression_345077..345307_POSITIVE 361 138 92 62 11 aact:AA02357|5end_bifunctional_protein:_aspartokinase_I;_homoserine_dehydrogenaseI_1614668..1614898_POSITIVE 354 50 8 150 107 aact:AA00947|5end_hypothetical_protein_655241..655471_POSITIVE 354 50 8 87 44 aact:AA00946|5end_hypothetical_protein_655178..655408_POSITIVE 351 50 5 157 112 aact:AA02244|5end_conserved_hypothetical_protein_(probable_DNA-binding_protein;_death-on-curing_family_protein0_1526402..1526632_POSITIVE 349 50 13 39 1 aact:AA03009|5end_hypothetical_protein_2101001..2101231_POSITIVE 348 56 12 146 105 aact:AA02344|5end_GTP-binding_protein,_elongation_factor_typA/bipA_1601966..1602196_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 414 50 10 83 42 aact:AA02402|3end_O-sialoglycoprotein_endopeptidase_1652442..1652592_POSITIVE 400 134 93 64 16 aact:AA01369|3end_rod_shape-determining_protein_925513..925663_POSITIVE 388 50 6 82 37 aact:AA02870|3end_conserved_hypothetical_protein_2015552..2015702_POSITIVE 386 58 11 64 10 aact:AA02992|3end_RNA_methyltransferase_2091740..2091890_POSITIVE 371 150 101 149 84 aact:AA02266|3end_exodeoxyribonuclease_V_beta_chain_1545422..1545572_POSITIVE 368 50 6 65 19 aact:AA01796|3end_branched-chain_amino_acid_aminotransferase_1212168..1212318_POSITIVE 362 50 2 124 69 aact:AA00495|3end_hypothetical_protein_345139..345289_POSITIVE 361 57 14 144 106 aact:AA02693|3end_hydrogenase-4_component_H_1878645..1878795_POSITIVE 354 50 8 61 18 aact:AA00944|3end_transcription_elongation_factor_655232..655382_POSITIVE 351 50 5 86 41 aact:AA02243|3end_conserved_hypothetical_protein_1526411..1526561_POSITIVE 341 50 3 80 35 aact:AA02338|3end_conserved_hypothetical_protein;_possible_integral_membrane_protein_1598885..1599035_POSITIVE 337 54 11 63 19 aact:AA01619|3end_phospho-2-dehydro-3-deoxyheptonate_aldolase_(DAHP_synthase)_1095578..1095728_POSITIVE 335 50 3 72 23 aact:AA00216|3end_conserved_hypothetical_protein_150722..150872_POSITIVE 332 50 3 63 14 aact:AA00471|3end_3,4-dihydroxy-2-butanone_4-phosphate_synthase;_GTP_cyclohydrase_II_328983..329133_POSITIVE 330 50 1 84 35 aact:AA02892|3end_oligopeptide_ABC_transporter,_periplasmic-binding_protein_2027177..2027327_POSITIVE 328 53 11 102 60 aact:AA02160|3end_conserved_hypothetical_protein_1478929..1479079_POSITIVE 325 119 71 99 51 aact:AA02969|3end_beta_tyrosinase_(tyrosine_phenol-lyase)_2076417..2076567_POSITIVE 323 138 91 112 44 aact:AA01138|3end_anaerobic_dimethyl_sulfoxide_reductase,_chain_B_781685..781835_POSITIVE 322 140 91 70 28 aact:AA02654|3end_probable_lipopolysaccharide_biosynthesis_protein_1849247..1849397_POSITIVE 322 50 1 83 37 aact:AA00120|3end_ATP-dependent_Clp_protease_ATP-binding_subunit_90281..90431_POSITIVE