Origin IGS: taataaatagataaaaaaagctggatctagagagattcagcttttgttttatgaaaggaaaagtgcggttgatttttaaggtgtttttttgaattaccaatatgttgaataagattaaaaaaggattgtataaaatcgtgcagggtaataaatcgtgagcttggcgagtatcgaagtcgcacagagcattttgttaaacgctgccccaccattaggcaacaagctcacatatttttaatcggttaaatacccataaaagcgtatgtcaagtagtttcagcacatagtcacccgaagatggctgctacctagaccgtctggtatattaattgacttctatatttcaacacacagccacctgaaggtggctgctttatactgataacctatcaattttagtttcaatccacgcactttacggatgcgaaccgttttca .........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 tgaaaacggttcgcatccgtaaagtgcgtggattgaaactaaaattgataggttatcagtataaagcagccaccttcaggtggctgtgtgttgaaatatagaagtcaattaatataccagacggtctaggtagcagccatcttcgggtgactatgtgctgaaactacttgacatacgcttttatgggtatttaaccgattaaaaatatgtgagcttgttgcctaatggtggggcagcgtttaacaaaatgctctgtgcgacttcgatactcgccaagctcacgatttattaccctgcacgattttatacaatccttttttaatcttattcaacatattggtaattcaaaaaaacaccttaaaaatcaaccgcacttttcctttcataaaacaaaagctgaatctctctagatccagctttttttatctatttatta Mask Tandem Repeat Region ================================================ taataaatagataaaaaaagctggatctagagagattcagcttttgttttatgaaaggaaaagtgcggttgatttttaaggtgtttttttgaattaccaatatgttgaataagattaaaaaaggattgtataaaatcgtgcagggtaataaatcgtgagcttggcgagtatcgaagtcgcacagagcattttgttaaacgctgccccaccattaggcaacaagctcacatatttttaatcggttaaatacccataaaagcgtatgtcaagtagtttcagcacatagtcacccgaagatggctgctacctagaccgtctggtatattaattgacttctatatttcaacacacagccacctgaaggtggctgctttatactgataacctatcaattttagtttcaatccacgcactttacggatgcgaaccgttttca Find is-nt database================================================ Query_seq: AA02540:AA02541|AA02540:AA02541:5-methyltetrahydropteroyltriglutamate-homocystein e methyltransferase:conserved hypothetical protein:->->:1769560..1769995 436 taataaatagataaaaaaagctggatctagagagattcagcttttgttttatgaaaggaaaagtgcggttgatttttaaggtgtttttttgaattaccaatatgttgaataagattaaaaaaggattgtataaaatcgtgcagggtaataaatcgtgagcttggcgagtatcgaagtcgcacagagcattttgttaaacgctgccccaccattaggcaacaagctcacatatttttaatcggttaaatacccataaaagcgtatgtcaagtagtttcagcacatagtcacccgaagatggctgctacctagaccgtctggtatattaattgacttctatatttcaacacacagccacctgaaggtggctgctttatactgataacctatcaattttagtttcaatccacgcactttacggatgcgaaccgttttca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA02540:AA02541|AA02540:AA02541:5-methyltetrahydropteroyltriglutamate-homocystein e methyltransferase:conserved hypothetical protein:->->:1769560..1769995 436 taataaatagataaaaaaagctggatctagagagattcagcttttgttttatgaaaggaaaagtgcggttgatttttaaggtgtttttttgaattaccaatatgttgaataagattaaaaaaggattgtataaaatcgtgcagggtaataaatcgtgagcttggcgagtatcgaagtcgcacagagcattttgttaaacgctgccccaccattaggcaacaagctcacatatttttaatcggttaaatacccataaaagcgtatgtcaagtagtttcagcacatagtcacccgaagatggctgctacctagaccgtctggtatattaattgacttctatatttcaacacacagccacctgaaggtggctgctttatactgataacctatcaattttagtttcaatccacgcactttacggatgcgaaccgttttca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA02540:AA02541|AA02540:AA02541:5-methyltetrahydropteroyltriglutamate-homocystein e methyltransferase:conserved hypothetical protein:->->:1769560..1769995 436 taataaatagataaaaaaagctggatctagagagattcagcttttgttttatgaaaggaaaagtgcggttgatttttaaggtgtttttttgaattaccaatatgttgaataagattaaaaaaggattgtataaaatcgtgcagggtaataaatcgtgagcttggcgagtatcgaagtcgcacagagcattttgttaaacgctgccccaccattaggcaacaagctcacatatttttaatcggttaaatacccataaaagcgtatgtcaagtagtttcagcacatagtcacccgaagatggctgctacctagaccgtctggtatattaattgacttctatatttcaacacacagccacctgaaggtggctgctttatactgataacctatcaattttagtttcaatccacgcactttacggatgcgaaccgttttca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taataaatagataaaaaaagctggatctagagagattcagcttttgttttatgaaaggaaaagtgcggttgatttttaaggtgtttttttgaattaccaatatgttgaataagattaaaaaaggattgtataaaatcgtgcagggtaataaatcgtgagcttggcgagtatcgaagtcgcacagagcattttgttaaacgctgccccaccattaggcaacaagctcacatatttttaatcggttaaatacccataaaagcgtatgtcaagtagtttcagcacatagtcacccgaagatggctgctacctagaccgtctggtatattaattgacttctatatttcaacacacagccacctgaaggtggctgctttatactgataacctatcaattttagtttcaatccacgcactttacggatgcgaaccgttttca Predict ORF larger than 30AA ================================================ Protein_Len: 45 Strand: + Start: 109 End: 243 ............................................................................................................ M R L K K D C I K S C R V I N R E L G E Y R S R T E H F V K R C P T I R Q Q A H I F L I G ................................................................................................................................................................................................. Protein_Len: 32 Strand: + Start: 283 End: 378 .......................................................................................................................................................................................................................................................................................... M V T R R W L L P R P S G I L I D F Y I S T H S H L K V A A L Y .......................................................... Protein_Len: 37 Strand: - Start: 118 End: 228 ..................................................................................................................... F L I T Y F R A P Y Y I T L K A L I S T A C L M K N F A A G G N P L L S M ................................................................................................................................................................................................................ Protein_Len: 60 Strand: - Start: 30 End: 212 ............................. S E A K T K H F S F H P Q N K L H K K S N G I H Q I L N F F S Q I F D H L T I F R S S P S Y R L R V S C K T L R Q G V M ................................................................................................................................................................................................................................ Protein_Len: 60 Strand: - Start: 2 End: 184 . F L Y F F S S R S L N L K Q K I F P F T R N I K L T N K Q I V L I N F L I L F P N Y L I T C P L L D H A Q R T D F D C M ............................................................................................................................................................................................................................................................ taataaatagataaaaaaagctggatctagagagattcagcttttgttttatgaaaggaaaagtgcggttgatttttaaggtgtttttttgaattaccaatatgttgaataagattaaaaaaggattgtataaaatcgtgcagggtaataaatcgtgagcttggcgagtatcgaagtcgcacagagcattttgttaaacgctgccccaccattaggcaacaagctcacatatttttaatcggttaaatacccataaaagcgtatgtcaagtagtttcagcacatagtcacccgaagatggctgctacctagaccgtctggtatattaattgacttctatatttcaacacacagccacctgaaggtggctgctttatactgataacctatcaattttagtttcaatccacgcactttacggatgcgaaccgttttca 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================================================ taataaatagataaaaaaagctggatctagagagattcagcttttgttttatgaaaggaaaagtgcggttgatttttaaggtgtttttttgaattaccaatatgttgaataagattaaaaaaggattgtataaaatcgtgcagggtaataaatcgtgagcttggcgagtatcgaagtcgcacagagcattttgttaaacgctgccccaccattaggcaacaagctcacatatttttaatcggttaaatacccataaaagcgtatgtcaagtagtttcagcacatagtcacccgaagatggctgctacctagaccgtctggtatattaattgacttctatatttcaacacacagccacctgaaggtggctgctttatactgataacctatcaattttagtttcaatccacgcactttacggatgcgaaccgttttca Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 100 HP_score: -7.3 Tail_Score: -5.82281 Start: 20 End: 41 Full_Region: tttcataaaacaaaa gctgaatct ctct agatccagc tttttttatctattt ...................gctgaatctctctagatccagc........................................................................................................................................................................................................................................................................................................................................................................................................... TransTerm Strand: + Conf: 85 HP_score: -10.1 Tail_Score: -3.99324 Start: 350 End: 371 Full_Region: TCTATATTTCAACAC ACAGCCACC TGAA GGTGGCTGC TTTATACTGATAACC .............................................................................................................................................................................................................................................................................................................................................................ACAGCCACCTGAAGGTGGCTGC................................................................. TransTerm Strand: + Conf: 100 HP_score: -13.6 Tail_Score: -2.99273 Start: 351 End: 370 Full_Region: CTATATTTCAACACA CAGCCACC TGAA GGTGGCTG CTTTATACTGATAAC ..............................................................................................................................................................................................................................................................................................................................................................CAGCCACCTGAAGGTGGCTG.................................................................. TransTerm Strand: - Conf: 100 HP_score: -13.6 Tail_Score: -3.09785 Start: 351 End: 370 Full_Region: gttatcagtataaag cagccacc ttca ggtggctg tgtgttgaaatatag ..............................................................................................................................................................................................................................................................................................................................................................cagccaccttcaggtggctg.................................................................. TransTerm Strand: + Conf: 78 HP_score: -10.4 Tail_Score: -3.04836 Start: 353 End: 368 Full_Region: ATATTTCAACACACA GCCACC TGAA GGTGGC TGCTTTATACTGATA ................................................................................................................................................................................................................................................................................................................................................................GCCACCTGAAGGTGGC.................................................................... TransTerm Strand: - Conf: 78 HP_score: -10.4 Tail_Score: -3.10513 Start: 353 End: 368 Full_Region: tatcagtataaagca gccacc ttca ggtggc tgtgtgttgaaatat ................................................................................................................................................................................................................................................................................................................................................................gccaccttcaggtggc.................................................................... Find igs database================================================ Query_seq: AA02540:AA02541|AA02540:AA02541:5-methyltetrahydropteroyltriglutamate-homocystein e methyltransferase:conserved hypothetical protein:->->:1769560..1769995 436 taataaatagataaaaaaagctggatctagagagattcagcttttgttttatgaaaggaaaagtgcggttgatttttaaggtgtttttttgaattaccaatatgttgaataagattaaaaaaggattgtataaaatcgtgcagggtaataaatcgtgagcttggcgagtatcgaagtcgcacagagcattttgttaaacgctgccccaccattaggcaacaagctcacatatttttaatcggttaaatacccataaaagcgtatgtcaagtagtttcagcacatagtcacccgaagatggctgctacctagaccgtctggtatattaattgacttctatatttcaacacacagccacctgaaggtggctgctttatactgataacctatcaattttagtttcaatccacgcactttacggatgcgaaccgttttca Intra-Species Hit: Count: 1 Min: 20 Max: 436 Len: 417 Subject: aact_AA02540_AA02541|5-methyltetrahydropteroyltriglutamate- homocystein e methyltransferase:conserved hypothetical protein|POSITIVE:POSITIVE|[1769560,1769995]|436 HSP 1 e-value: 0.0 bit: 785.0 Len: 417 Query Start:20 Query End:436 Subject Strand: POSITIVE Subject Start: 20 Subject End: 436 ...................gctggatctagagagattcagcttttgttttatgaaaggaaaagtgcggttgatttttaaggtgnnnnnnngaattaccaatatgttgaataagattaaaaaaggattgtataaaatcgtgcagggtaataaatcgtgagcttggcgagtatcgaagtcgcacagagcattttgttaaacgctgccccaccattaggcaacaagctcacatatttttaatcggttaaatacccataaaagcgtatgtcaagtagtttcagcacatagtcacccgaagatggctgctacctagaccgtctggtatattaattgacttctatatttcaacacacagccacctgaaggtggctgctttatactgataacctatcaattttagtttcaatccacgcactttacggatgcgaaccgttttca ...................gctggatctagagagattcagcttttgttttatgaaaggaaaagtgcggttgatttttaaggtgtttttttgaattaccaatatgttgaataagattaaaaaaggattgtataaaatcgtgcagggtaataaatcgtgagcttggcgagtatcgaagtcgcacagagcattttgttaaacgctgccccaccattaggcaacaagctcacatatttttaatcggttaaatacccataaaagcgtatgtcaagtagtttcagcacatagtcacccgaagatggctgctacctagaccgtctggtatattaattgacttctatatttcaacacacagccacctgaaggtggctgctttatactgataacctatcaattttagtttcaatccacgcactttacggatgcgaaccgttttca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GCUGGAUCUAGAGAGAUUCAGCUUUUGUUUUAUGAAAGGAAAAGUGCGGUUGAUUUUUAAGGUGUUUUUUUGAAUUACCAAUAUGUUGAAUAAGAUUAAAAAAGGAUUGUAUAAAAUCGUGCAGGGUAAUAAAUCGUGAGCUUGGCGAGUAUCGAAGUCGCACAGAGCAUUUUGUUAAACGCUGCCCCACCAUUAGGCAACAAGCUCACAUAUUUUUAAUCGGUUAAAUACCCAUAAAAGCGUAUGUCAAGUAGUUUCAGCACAUAGUCACCCGAAGAUGGCUGCUACCUAGACCGUCUGGUAUAUUAAUUGACUUCUAUAUUUCAACACACAGCCACCUGAAGGUGGCUGCUUUAUACUGAUAACCUAUCAAUUUUAGUUUCAAUCCACGCACUUUACGGAUGCGAACCGUUUUCA (((((((((....)))))))))................((((...((((((((((..((((((((....(((((.........(((((((...(((((((((....((((((......))))))...........((((((((((((..((.((((((.((.....)))))))).))..))).(((.........)))..)))))))))...))))))))).((((((((((.......(((...(((..((((...((((.(((..((....))..)))))))))))...))))))..))))).....)))))........)))))))..((((((((....))))))))........(((((...)))))........))))).....))))))))..))).).)))))))))). (-113.20) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAAAACGGUUCGCAUCCGUAAAGUGCGUGGAUUGAAACUAAAAUUGAUAGGUUAUCAGUAUAAAGCAGCCACCUUCAGGUGGCUGUGUGUUGAAAUAUAGAAGUCAAUUAAUAUACCAGACGGUCUAGGUAGCAGCCAUCUUCGGGUGACUAUGUGCUGAAACUACUUGACAUACGCUUUUAUGGGUAUUUAACCGAUUAAAAAUAUGUGAGCUUGUUGCCUAAUGGUGGGGCAGCGUUUAACAAAAUGCUCUGUGCGACUUCGAUACUCGCCAAGCUCACGAUUUAUUACCCUGCACGAUUUUAUACAAUCCUUUUUUAAUCUUAUUCAACAUAUUGGUAAUUCAAAAAAACACCUUAAAAAUCAACCGCACUUUUCCUUUCAUAAAACAAAAGCUGAAUCUCUCUAGAUCCAGC (((((((((.......))))((((((((..((((..............(..((((((((((....(((((((((....)))))))))..((((((.(((((((((..........(((....))).((((((((((((((....((....))))).))))...)))))))......)))))))))...........(((((((((..((((((((((..((((.......)))).((((((....))))))...(((((....)).)))....))))))))))................((((......))))..)))))))))...)))))).))))))))))..)...............))))...))))))))...)))))..........((((.((((....)))).)))) (-109.45) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 446 70 23 175 125 aact:AA01376|5end_hypothetical_protein_931163..931393_POSITIVE 427 79 38 54 15 aact:AA02484|5end_ABC_transporter,_ATP-binding_protein_1721077..1721307_POSITIVE 417 67 21 174 125 aact:AA00515|5end_hypothetical_protein_355730..355960_POSITIVE 417 67 21 53 4 aact:AA00514|5end_hypothetical_protein_355609..355839_POSITIVE 410 69 33 87 50 aact:AA00803|5end_hypothetical_protein_549526..549756_POSITIVE 406 188 141 200 145 aact:AA01183|5end_conserved_hypothetical_protein_810442..810672_POSITIVE 387 80 32 163 113 aact:AA02348|5end_bacterioferritin_comigratory_protein_1606772..1607002_POSITIVE 386 70 24 185 139 aact:AA00395|5end_conserved_hypothetical_protein_265278..265508_POSITIVE 384 68 23 217 173 aact:AA02519|5end_DNA_gyrase_A_1749872..1750102_POSITIVE 384 68 23 52 8 aact:AA02518|5end_hypothetical_protein_1749707..1749937_POSITIVE 373 79 38 137 96 aact:AA00200|5end_thymidylate_synthase_138892..139122_POSITIVE 372 69 21 123 62 aact:AA00854|5end_arginine_transport_system_permease_protein_588898..589128_POSITIVE 371 70 21 197 145 aact:AA02067|5end_conserved_hypothetical_protein;_possible_membrane_protein_1405233..1405463_POSITIVE 371 70 21 79 27 aact:AA02066|5end_hypothetical_protein_1405115..1405345_POSITIVE 371 70 21 141 96 aact:AA00124|5end_conserved_hypothetical_protein_(possible_cytoplasmic_protein)_90270..90500_POSITIVE 371 70 21 92 47 aact:AA00123|5end_hypothetical_protein_90221..90451_POSITIVE 371 70 21 83 38 aact:AA00122|5end_hypothetical_protein_90212..90442_POSITIVE 368 70 21 213 160 aact:AA02774|5end_collagenase_prtC_homolog,_possible_protease_1936870..1937100_POSITIVE 368 68 32 139 103 aact:AA02597|5end_ribonuclease_D_1807124..1807354_POSITIVE 362 80 31 213 161 aact:AA01111|5end_conserved_hypothetical_protein_764765..764995_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 446 70 23 136 86 aact:AA01375|3end_hypothetical_protein_931204..931354_POSITIVE 435 363 321 127 85 aact:AA01858|3end_conserved_hypothetical_protein_1251537..1251687_POSITIVE 417 67 21 50 1 aact:AA00513|3end_pseudouridylate_synthase_(pseudouridine_synthase)_355686..355836_POSITIVE 404 89 41 101 53 aact:AA00974|3end_glucosamine-fructose-6-phosphate_681127..681277_POSITIVE 387 80 32 93 43 aact:AA02347|3end_immunoglobulin_A1_protease_precursor_1606782..1606932_POSITIVE 386 70 24 75 29 aact:AA00391|3end_arsenate_reductase_265248..265398_POSITIVE 384 68 23 46 2 aact:AA02516|3end_ferric_uptake_regulation_protein_1749781..1749931_POSITIVE 371 70 21 101 49 aact:AA02063|3end_23S_rRNA_psedouridine_synthase,_Rlu_family_protein_1405217..1405367_POSITIVE 371 70 21 72 27 aact:AA00120|3end_ATP-dependent_Clp_protease_ATP-binding_subunit_90281..90431_POSITIVE 368 68 32 45 9 aact:AA02595|3end_cytochrome_c_peroxidase_1807110..1807260_POSITIVE 366 69 26 61 21 aact:AA02570|3end_conserved_hypothetical_protein_1790225..1790375_POSITIVE 362 80 31 93 41 aact:AA01109|3end_oxidoreductase_(possible_short-chain_alcohol_dehydrogenase)_764725..764875_POSITIVE 352 85 42 41 1 aact:AA01374|3end_tRNA/rRNA_methyltransferase_931097..931247_POSITIVE 347 80 37 105 56 aact:AA02286|3end_sugar_ABC_transporter,_ATP-binding_protein_1558536..1558686_POSITIVE 346 165 124 71 15 aact:AA01192|3end_conserved_hypothetical_protein_(possible_membrane_protein)_817977..818127_POSITIVE 343 70 23 66 23 aact:AA02777|3end_tRNA-guanine_transglycosylase_1942527..1942677_POSITIVE 341 50 1 116 63 aact:AA01474|3end_hypothetical_protein_990431..990581_POSITIVE 340 80 39 81 43 aact:AA02962|3end_recombination_associated_protein_2072285..2072435_POSITIVE 335 74 35 37 1 aact:AA03001|3end_probable_glycyl_radical_protein/pyruvate-formate_lyase_2096487..2096637_POSITIVE 335 154 111 75 37 aact:AA02187|3end_hypothetical_protein_1492847..1492997_POSITIVE