Origin IGS: attttcaaccgcacttttctcatccgaagggcggctactatggaagaaatgggcggggtgtaaaaccgacggaagtgaatattggaaactgaatcacaaaaataaaatttttcatcaaaaaagctaatagatgtgtaaattttatttgataaataggataagttctgctatttatacgccttcaaaatttgggtccgttttttaataggtttactttggtagtaacaacattaagcaacactggattgtgggggcttagcagtatgaaatggatgaattttttattaggagatacaa .........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 ttgtatctcctaataaaaaattcatccatttcatactgctaagcccccacaatccagtgttgcttaatgttgttactaccaaagtaaacctattaaaaaacggacccaaattttgaaggcgtataaatagcagaacttatcctatttatcaaataaaatttacacatctattagcttttttgatgaaaaattttatttttgtgattcagtttccaatattcacttccgtcggttttacaccccgcccatttcttccatagtagccgcccttcggatgagaaaagtgcggttgaaaat Mask Tandem Repeat Region ================================================ attttcaaccgcacttttctcatccgaagggcggctactatggaagaaatgggcggggtgtaaaaccgacggaagtgaatattggaaactgaatcacaaaaataaaatttttcatcaaaaaagctaatagatgtgtaaattttatttgataaataggataagttctgctatttatacgccttcaaaatttgggtccgttttttaataggtttactttggtagtaacaacattaagcaacactggattgtgggggcttagcagtatgaaatggatgaattttttattaggagatacaa Find is-nt database================================================ Query_seq: AA01962:AA01963|AA01962:AA01963:recombination protein rec2:dnaK suppressor protein:->->:1328767..1329063 297 attttcaaccgcacttttctcatccgaagggcggctactatggaagaaatgggcggggtgtaaaaccgacggaagtgaatattggaaactgaatcacaaaaataaaatttttcatcaaaaaagctaatagatgtgtaaattttatttgataaataggataagttctgctatttatacgccttcaaaatttgggtccgttttttaataggtttactttggtagtaacaacattaagcaacactggattgtgggggcttagcagtatgaaatggatgaattttttattaggagatacaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA01962:AA01963|AA01962:AA01963:recombination protein rec2:dnaK suppressor protein:->->:1328767..1329063 297 attttcaaccgcacttttctcatccgaagggcggctactatggaagaaatgggcggggtgtaaaaccgacggaagtgaatattggaaactgaatcacaaaaataaaatttttcatcaaaaaagctaatagatgtgtaaattttatttgataaataggataagttctgctatttatacgccttcaaaatttgggtccgttttttaataggtttactttggtagtaacaacattaagcaacactggattgtgggggcttagcagtatgaaatggatgaattttttattaggagatacaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA01962:AA01963|AA01962:AA01963:recombination protein rec2:dnaK suppressor protein:->->:1328767..1329063 297 attttcaaccgcacttttctcatccgaagggcggctactatggaagaaatgggcggggtgtaaaaccgacggaagtgaatattggaaactgaatcacaaaaataaaatttttcatcaaaaaagctaatagatgtgtaaattttatttgataaataggataagttctgctatttatacgccttcaaaatttgggtccgttttttaataggtttactttggtagtaacaacattaagcaacactggattgtgggggcttagcagtatgaaatggatgaattttttattaggagatacaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 attttcaaccgcacttttctcatccgaagggcggctactatggaagaaatgggcggggtgtaaaaccgacggaagtgaatattggaaactgaatcacaaaaataaaatttttcatcaaaaaagctaatagatgtgtaaattttatttgataaataggataagttctgctatttatacgccttcaaaatttgggtccgttttttaataggtttactttggtagtaacaacattaagcaacactggattgtgggggcttagcagtatgaaatggatgaattttttattaggagatacaa Predict ORF larger than 30AA ================================================ Protein_Len: 44 Strand: + Start: 165 End: 296 .................................................................................................................................................................... M L F I R L Q N L G P F F N R F T L V V T T L S N T G L W G L S S M K W M N F L L G D T . Protein_Len: 30 Strand: - Start: 185 End: 274 ........................................................................................................................................................................................ F K P G N K L L N V K T T V V N L L V P N H P S L L I F H M ....................... Protein_Len: 45 Strand: - Start: 41 End: 175 ........................................ P L F P R P T F G V S T F I P F Q I V F I F N K M L F A L L H T F K I Q Y I P Y T R S N M .......................................................................................................................... Protein_Len: 46 Strand: - Start: 3 End: 140 .. K L R V K R M R L A A V I S S I P P T Y F R R F H I N S V S D C F Y F K E D F F S I S T Y M ............................................................................................................................................................. attttcaaccgcacttttctcatccgaagggcggctactatggaagaaatgggcggggtgtaaaaccgacggaagtgaatattggaaactgaatcacaaaaataaaatttttcatcaaaaaagctaatagatgtgtaaattttatttgataaataggataagttctgctatttatacgccttcaaaatttgggtccgttttttaataggtttactttggtagtaacaacattaagcaacactggattgtgggggcttagcagtatgaaatggatgaattttttattaggagatacaa 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================================================ attttcaaccgcacttttctcatccgaagggcggctactatggaagaaatgggcggggtgtaaaaccgacggaagtgaatattggaaactgaatcacaaaaataaaatttttcatcaaaaaagctaatagatgtgtaaattttatttgataaataggataagttctgctatttatacgccttcaaaatttgggtccgttttttaataggtttactttggtagtaacaacattaagcaacactggattgtgggggcttagcagtatgaaatggatgaattttttattaggagatacaa Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 74 HP_score: -2.5 Tail_Score: -5.3658 Start: 108 End: 121 Full_Region: acacatctattagct ttttt gatg aaaaa ttttatttttgtgat ...........................................................................................................tttttgatgaaaaa................................................................................................................................................................................ Find igs database================================================ Query_seq: AA01962:AA01963|AA01962:AA01963:recombination protein rec2:dnaK suppressor protein:->->:1328767..1329063 297 attttcaaccgcacttttctcatccgaagggcggctactatggaagaaatgggcggggtgtaaaaccgacggaagtgaatattggaaactgaatcacaaaaataaaatttttcatcaaaaaagctaatagatgtgtaaattttatttgataaataggataagttctgctatttatacgccttcaaaatttgggtccgttttttaataggtttactttggtagtaacaacattaagcaacactggattgtgggggcttagcagtatgaaatggatgaattttttattaggagatacaa Intra-Species Hit: Count: 1 Min: 1 Max: 297 Len: 297 Subject: aact_AA01962_AA01963|recombination protein rec2:dnaK suppressor protein|POSITIVE:POSITIVE|[1328767,1329063]|297 HSP 1 e-value: 1.0E-167 bit: 589.0 Len: 297 Query Start:1 Query End:297 Subject Strand: POSITIVE Subject Start: 1 Subject End: 297 attttcaaccgcacttttctcatccgaagggcggctactatggaagaaatgggcggggtgtaaaaccgacggaagtgaatattggaaactgaatcacaaaaataaaatttttcatcaaaaaagctaatagatgtgtaaattttatttgataaataggataagttctgctatttatacgccttcaaaatttgggtccgttttttaataggtttactttggtagtaacaacattaagcaacactggattgtgggggcttagcagtatgaaatggatgaattttttattaggagatacaa attttcaaccgcacttttctcatccgaagggcggctactatggaagaaatgggcggggtgtaaaaccgacggaagtgaatattggaaactgaatcacaaaaataaaatttttcatcaaaaaagctaatagatgtgtaaattttatttgataaataggataagttctgctatttatacgccttcaaaatttgggtccgttttttaataggtttactttggtagtaacaacattaagcaacactggattgtgggggcttagcagtatgaaatggatgaattttttattaggagatacaa Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUUUUCAACCGCACUUUUCUCAUCCGAAGGGCGGCUACUAUGGAAGAAAUGGGCGGGGUGUAAAACCGACGGAAGUGAAUAUUGGAAACUGAAUCACAAAAAUAAAAUUUUUCAUCAAAAAAGCUAAUAGAUGUGUAAAUUUUAUUUGAUAAAUAGGAUAAGUUCUGCUAUUUAUACGCCUUCAAAAUUUGGGUCCGUUUUUUAAUAGGUUUACUUUGGUAGUAACAACAUUAAGCAACACUGGAUUGUGGGGGCUUAGCAGUAUGAAAUGGAUGAAUUUUUUAUUAGGAGAUACAA ........((((...(((((..((((.((........)).)))))))))...)))).((((....((.......((((.(...(....)..).))))..(((((((((((..((((.............))))...)))))))))))....(((((((..(((((..(((((((((((((((((.((((..(....(((.((((((..(((.(((.....))))))...)))))).))).)..)))).)))))))......))))).)))))..)))))))))))).))..)))).. (-65.32) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUGUAUCUCCUAAUAAAAAAUUCAUCCAUUUCAUACUGCUAAGCCCCCACAAUCCAGUGUUGCUUAAUGUUGUUACUACCAAAGUAAACCUAUUAAAAAACGGACCCAAAUUUUGAAGGCGUAUAAAUAGCAGAACUUAUCCUAUUUAUCAAAUAAAAUUUACACAUCUAUUAGCUUUUUUGAUGAAAAAUUUUAUUUUUGUGAUUCAGUUUCCAAUAUUCACUUCCGUCGGUUUUACACCCCGCCCAUUUCUUCCAUAGUAGCCGCCCUUCGGAUGAGAAAAGUGCGGUUGAAAAU ............................(((((...((..(((((..(((......)))....((((((...(((((.....)))))...))))))...(((((....(((.(((.((((..((((((((..((.....)))))))))).(((((((((((...((((.............))))..)))))))))))..........)))).))).)))....))))).)))))..))..((((.(.((((((((..((........))..)))..))))).).)))).))))).. (-45.52) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 404 57 25 99 67 aact:AA02731|5end_outer_membrane_lipoprotein_carrier_precursor_1911498..1911728_POSITIVE 380 61 22 178 132 aact:AA02565|5end_transketolase,_N-terminal_subunit_1786366..1786596_POSITIVE 374 88 50 156 124 aact:AA00973|5end_transcriptional_regulator,_DeoR_family_678363..678593_POSITIVE 370 78 31 207 162 aact:AA00002|5end_DNA_polymerase_III,_beta_subunit_1233..1463_POSITIVE 365 58 26 147 113 aact:AA01830|5end_2,3-cyclic-nucleotide_2-phosphodiesterase_1231556..1231786_POSITIVE 348 60 12 58 11 aact:AA02682|5end_hydrogenase_maturation_protein_1866304..1866534_POSITIVE 347 78 31 114 58 aact:AA02813|5end_hypothetical_protein_1980045..1980275_POSITIVE 347 68 24 163 100 aact:AA02297|5end_conserved_hypothetical_protein_1569620..1569850_POSITIVE 347 68 24 163 100 aact:AA00621|5end_conserved_hypothetical_protein_428727..428957_POSITIVE 347 68 24 163 100 aact:AA00412|5end_conserved_hypothetical_protein_279174..279404_POSITIVE 345 61 29 83 52 aact:AA01117|5end_signal_recognition_particle_protein_54_(GTP-binding_export_factor)_767919..768149_POSITIVE 339 56 12 70 26 aact:AA01419|5end_D-ribulose-phosphate-3_epimerase_954378..954608_POSITIVE 335 59 20 180 145 aact:AA01794|5end_glycine_cleavage_system_transcription_activator_1209708..1209938_POSITIVE 335 69 25 205 156 aact:AA01054|5end_conserved_hypothetical_protein_733678..733908_POSITIVE 335 68 24 183 136 aact:AA00866|5end_conserved_hypothetical_protein_599925..600155_POSITIVE 333 69 25 44 5 aact:AA00530|5end_hypothetical_protein_362373..362603_POSITIVE 332 79 31 60 8 aact:AA02269|5end_3-hydroxydecanoyl-(acyl-carrier_protein)_dehydratase_1546197..1546427_POSITIVE 330 77 32 70 17 aact:AA02733|5end_cell_division_protein_K;_sporulation_protein_spoIIIE_1912208..1912438_POSITIVE 330 60 24 139 96 aact:AA02421|5end_conserved_hypothetical_protein_1667044..1667274_POSITIVE 330 86 43 53 8 aact:AA01984|5end_tellurite_resistance_protein;_hemagglutinin_homolog_1344817..1345047_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 404 57 25 83 51 aact:AA02728|3end_conserved_hypothetical_protein_(possible_ATPase)_1911562..1911712_POSITIVE 366 289 241 81 25 aact:AA02844|3end_Holliday_junction_DNA_helicase_1997885..1998035_POSITIVE 347 78 31 94 38 aact:AA02811|3end_hypothetical_protein_1980105..1980255_POSITIVE 329 72 32 68 36 aact:AA01987|3end_hypothetical_protein_1350620..1350770_POSITIVE 322 77 32 93 47 aact:AA02543|3end_conserved_hypothetical_protein_1773434..1773584_POSITIVE 320 34 3 146 119 aact:AA00500|3end_hypothetical_protein_347356..347506_POSITIVE 320 34 3 69 42 aact:AA00499|3end_pyridoxamine-5'-phosphate_oxidase_347279..347429_POSITIVE 315 44 4 45 3 aact:AA00478|3end_mannose-specific_phosphotransferase_element_333534..333684_POSITIVE 315 79 33 78 19 aact:AA00040|3end_thiol:disulfide_interchange_protein_31965..32115_POSITIVE 314 59 20 44 2 aact:AA00271|3end_hypothetical_protein_190469..190619_POSITIVE 308 34 8 80 55 aact:AA02136|3end_aspartate_aminotransferase_1460476..1460626_POSITIVE 307 43 1 53 4 aact:AA01881|3end_adenylate_kinase_1269765..1269915_POSITIVE 305 75 31 142 102 aact:AA01472|3end_hypothetical_protein_989158..989308_POSITIVE 305 98 53 62 17 aact:AA00052|3end_cytochrome_c-type_biogenesis_protein_precursor_41470..41620_POSITIVE 304 48 6 76 31 aact:AA00453|3end_phosphoglyceromutase_318009..318159_POSITIVE 303 60 15 63 22 aact:AA02632|3end_rhamnosyltransferase_1832694..1832844_POSITIVE 302 69 24 55 1 aact:AA01629|3end_phosphatidylglycerophosphatase_A_1102449..1102599_POSITIVE 301 59 15 151 99 aact:AA01167|3end_glucose-6-phosphate_1-dehydrogenase_801067..801217_POSITIVE 300 42 5 147 112 aact:AA01937|3end_sugar_fermentation_stimulation_protein_1309334..1309484_POSITIVE 298 45 8 117 75 aact:AA02940|3end_conserved_hypothetical_protein_2058652..2058802_POSITIVE