Origin IGS: taaggtttgttttgatttaacgaaaattacagccgcacttttaagggaatcaaaatgatctatctcccctaaacttaggttgatctgtccaagttttggggagtagattaaagtgcggtcgatttaaaaaacgtttttcaaaccgaccgcactttttacctcactaactccaatta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taattggagttagtgaggtaaaaagtgcggtcggtttgaaaaacgttttttaaatcgaccgcactttaatctactccccaaaacttggacagatcaacctaagtttaggggagatagatcattttgattcccttaaaagtgcggctgtaattttcgttaaatcaaaacaaacctta Mask Tandem Repeat Region ================================================ taaggtttgttttgatttaacgaaaattacagccgcacttttaagggaatcaaaatgatctatctcccctaaacttaggttgatctgtccaagttttggggagtagattaaagtgcggtcgatttaaaaaacgtttttcaaaccgaccgcactttttacctcactaactccaatta Find is-nt database================================================ Query_seq: AA02699:AA02700|AA02699:AA02700:formate dehydrogenase H, selenopolypeptide subunit:succinyl-CoA synthase, alpha subunit:->->:1883220..1883395 176 taaggtttgttttgatttaacgaaaattacagccgcacttttaagggaatcaaaatgatctatctcccctaaacttaggttgatctgtccaagttttggggagtagattaaagtgcggtcgatttaaaaaacgtttttcaaaccgaccgcactttttacctcactaactccaatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA02699:AA02700|AA02699:AA02700:formate dehydrogenase H, selenopolypeptide subunit:succinyl-CoA synthase, alpha subunit:->->:1883220..1883395 176 taaggtttgttttgatttaacgaaaattacagccgcacttttaagggaatcaaaatgatctatctcccctaaacttaggttgatctgtccaagttttggggagtagattaaagtgcggtcgatttaaaaaacgtttttcaaaccgaccgcactttttacctcactaactccaatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA02699:AA02700|AA02699:AA02700:formate dehydrogenase H, selenopolypeptide subunit:succinyl-CoA synthase, alpha subunit:->->:1883220..1883395 176 taaggtttgttttgatttaacgaaaattacagccgcacttttaagggaatcaaaatgatctatctcccctaaacttaggttgatctgtccaagttttggggagtagattaaagtgcggtcgatttaaaaaacgtttttcaaaccgaccgcactttttacctcactaactccaatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taaggtttgttttgatttaacgaaaattacagccgcacttttaagggaatcaaaatgatctatctcccctaaacttaggttgatctgtccaagttttggggagtagattaaagtgcggtcgatttaaaaaacgtttttcaaaccgaccgcactttttacctcactaactccaatta Predict ORF larger than 30AA ================================================ Protein_Len: 41 Strand: - Start: 1 End: 123 L T Q K S K V F I V A A S K L S D F H D I E G L S L N I Q G L K P S Y I L T R D M ..................................................... taaggtttgttttgatttaacgaaaattacagccgcacttttaagggaatcaaaatgatctatctcccctaaacttaggttgatctgtccaagttttggggagtagattaaagtgcggtcgatttaaaaaacgtttttcaaaccgaccgcactttttacctcactaactccaatta 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================================================ taaggtttgttttgatttaacgaaaattacagccgcacttttaagggaatcaaaatgatctatctcccctaaacttaggttgatctgtccaagttttggggagtagattaaagtgcggtcgatttaaaaaacgtttttcaaaccgaccgcactttttacctcactaactccaatta Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 72 HP_score: -6.0 Tail_Score: -4.45664 Start: 56 End: 110 Full_Region: aaatcgaccgcactt taatctactccccaaaacttgg acagatcaac ctaagtttaggggagatagatca ttttgattcccttaa .......................................................taatctactccccaaaacttggacagatcaacctaagtttaggggagatagatca.................................................................. TransTerm Strand: - Conf: 65 HP_score: -7.7 Tail_Score: -3.1867 Start: 59 End: 107 Full_Region: tcgaccgcactttaa tctactccccaaaacttgg acagatcaac ctaagtttaggggagataga tcattttgattccct ..........................................................tctactccccaaaacttggacagatcaacctaagtttaggggagataga..................................................................... TransTerm Strand: + Conf: 61 HP_score: -7.9 Tail_Score: -2.53876 Start: 64 End: 103 Full_Region: ATCAAAATGATCTAT CTCCCCTAAACTTAGGT TGATCT GTCCAAGTTTTGGGGAG TAGATTAAAGTGCGG ...............................................................CTCCCCTAAACTTAGGTTGATCTGTCCAAGTTTTGGGGAG......................................................................... TransTerm Strand: + Conf: 100 HP_score: -15.2 Tail_Score: -4.67353 Start: 113 End: 152 Full_Region: GGGGAGTAGATTAAA GTGCGGTCGATTTAAAAA ACGT TTTTCAAACCGACCGCAC TTTTTACCTCACTAA ................................................................................................................GTGCGGTCGATTTAAAAAACGTTTTTCAAACCGACCGCAC........................ TransTerm Strand: - Conf: 100 HP_score: -19.6 Tail_Score: -3.86202 Start: 113 End: 152 Full_Region: ttagtgaggtaaaaa gtgcggtcggtttgaaaa acgt tttttaaatcgaccgcac tttaatctactcccc ................................................................................................................gtgcggtcggtttgaaaaacgttttttaaatcgaccgcac........................ Find igs database================================================ Query_seq: AA02699:AA02700|AA02699:AA02700:formate dehydrogenase H, selenopolypeptide subunit:succinyl-CoA synthase, alpha subunit:->->:1883220..1883395 176 taaggtttgttttgatttaacgaaaattacagccgcacttttaagggaatcaaaatgatctatctcccctaaacttaggttgatctgtccaagttttggggagtagattaaagtgcggtcgatttaaaaaacgtttttcaaaccgaccgcactttttacctcactaactccaatta Intra-Species Hit: Count: 1 Min: 1 Max: 176 Len: 176 Subject: aact_AA02699_AA02700|formate dehydrogenase H, selenopolypeptide subunit:succinyl-CoA synthase, alpha subunit|POSITIVE:POSITIVE|[1883220,1883395]|176 HSP 1 e-value: 2.0E-95 bit: 349.0 Len: 176 Query Start:1 Query End:176 Subject Strand: POSITIVE Subject Start: 1 Subject End: 176 taaggtttgttttgatttaacgaaaattacagccgcacttttaagggaatcaaaatgatctatctcccctaaacttaggttgatctgtccaagttttggggagtagattaaagtgcggtcgatttaaaaaacgtttttcaaaccgaccgcactttttacctcactaactccaatta taaggtttgttttgatttaacgaaaattacagccgcacttttaagggaatcaaaatgatctatctcccctaaacttaggttgatctgtccaagttttggggagtagattaaagtgcggtcgatttaaaaaacgtttttcaaaccgaccgcactttttacctcactaactccaatta HSP 2 e-value: 3.0E-8 bit: 60.0 Len: 46 Query Start:110 Query End:155 Subject Strand: NEGATIVE Subject Start: 110 Subject End: 155 .............................................................................................................aaagtgcggtcgatttaaaaaacgtttttcaaaccgaccgcacttt..................... .............................................................................................................aaagtgcggtcggtttgaaaaacgttttttaaatcgaccgcacttt..................... Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAGGUUUGUUUUGAUUUAACGAAAAUUACAGCCGCACUUUUAAGGGAAUCAAAAUGAUCUAUCUCCCCUAAACUUAGGUUGAUCUGUCCAAGUUUUGGGGAGUAGAUUAAAGUGCGGUCGAUUUAAAAAACGUUUUUCAAACCGACCGCACUUUUUACCUCACUAACUCCAAUUA ..((((..((((((((((....((((............))))....))))))))))((((((.((((((.((((((.((.........)))))))).))))))))))))((((((((((((.(((.((((....)))).))).))))))))))))..))))............... (-52.10) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUUGGAGUUAGUGAGGUAAAAAGUGCGGUCGGUUUGAAAAACGUUUUUUAAAUCGACCGCACUUUAAUCUACUCCCCAAAACUUGGACAGAUCAACCUAAGUUUAGGGGAGAUAGAUCAUUUUGAUUCCCUUAAAAGUGCGGCUGUAAUUUUCGUUAAAUCAAAACAAACCUUA .............((((((..(((((((((((((((((((((....))))))))))))))))))))).(((((((((((.((((((((..........)))))))).)))))).)))))..((((((((.....((((.(((....))).)))).....))))))))...)))))) (-63.20) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 668 158 111 172 125 aact:AA00721|5end_probable_beta-N-acetylhexosaminidase_(lacto-N-biosidase);_dispersin_B_494739..494969_POSITIVE 668 158 111 60 13 aact:AA00719|5end_hypothetical_protein_494627..494857_POSITIVE 610 120 72 141 88 aact:AA00145|5end_probable_degenerate_transposase_fragment_105046..105276_POSITIVE 581 156 111 221 176 aact:AA02778|5end_hypothetical_protein_1942585..1942815_POSITIVE 573 126 86 64 24 aact:AA01176|5end_hypothetical_protein_806309..806539_POSITIVE 562 160 111 158 107 aact:AA01648|5end_alpha-amylase_protein;_1,4-alpha-D-glucan_glucanohydrolase_1115170..1115400_POSITIVE 562 160 111 57 6 aact:AA01646|5end_hypothetical_protein_1115069..1115299_POSITIVE 514 119 78 81 40 aact:AA02681|5end_hypothetical_protein_1865749..1865979_POSITIVE 507 155 111 159 115 aact:AA00766|5end_heat_shock_protein_B25.3_(HSP-70_cofactor)_527384..527614_POSITIVE 505 157 111 165 119 aact:AA01967|5end_hypothetical_protein_1331511..1331741_POSITIVE 497 157 111 152 106 aact:AA02888|5end_ssrA-binding_protein,_small_protein_B_2024628..2024858_POSITIVE 494 154 111 166 123 aact:AA00356|5end_DNA-directed_RNA_polymerase,_beta'_chain_238937..239167_POSITIVE 478 156 111 172 127 aact:AA01117|5end_signal_recognition_particle_protein_54_(GTP-binding_export_factor)_767919..768149_POSITIVE 475 157 111 166 112 aact:AA02249|5end_thiamine_biosynthesis_protein_1528365..1528595_POSITIVE 471 120 74 146 101 aact:AA01267|5end_degenerate_transposase_fragment_862267..862497_POSITIVE 471 120 74 132 87 aact:AA01075|5end_hypothetical_protein_745605..745835_POSITIVE 459 155 113 153 116 aact:AA00300|5end_conserved_hypothetical_protein_203785..204015_POSITIVE 455 119 74 74 23 aact:AA02419|5end_hypothetical_protein_1661731..1661961_POSITIVE 445 119 74 131 87 aact:AA02340|5end_hypothetical_protein_1598887..1599117_POSITIVE 436 154 111 93 40 aact:AA02143|5end_hypothetical_protein_1467433..1467663_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 668 158 111 76 29 aact:AA00718|3end_ABC-related_ATP-binding_protein;_MRP_protein_494723..494873_POSITIVE 581 156 111 83 38 aact:AA02777|3end_tRNA-guanine_transglycosylase_1942527..1942677_POSITIVE 573 126 86 70 30 aact:AA01175|3end_6-phosphogluconate_dehydrogenase_806395..806545_POSITIVE 562 160 111 92 41 aact:AA01645|3end_ferric_transport_ABC-related_ATP-binding_protein_1115184..1115334_POSITIVE 514 119 78 63 22 aact:AA02679|3end_formate_dehydrogenase,_gamma_subunit_1865811..1865961_POSITIVE 505 157 111 88 42 aact:AA01966|3end_2-amino-4-hydroxy-6-hydroxymethyldihydropteridine_pyrophosphokinase_1331514..1331664_POSITIVE 497 157 111 78 32 aact:AA02886|3end_OBG-related_GTP-binding_protein_2024634..2024784_POSITIVE 494 154 111 60 17 aact:AA00355|3end_DNA-directed_RNA_polymerase_beta_chain_(transcriptase_beta_chain)_238911..239061_POSITIVE 492 150 103 70 23 aact:AA00629|3end_inosine_5'_monophosphate_dehydrogenase_(IMP_dehydrogenase)_433469..433619_POSITIVE 475 157 111 76 22 aact:AA02246|3end_peptidase_E_1528355..1528505_POSITIVE 471 120 74 50 5 aact:AA01266|3end_hypothetical_protein_862251..862401_POSITIVE 471 120 74 70 25 aact:AA01074|3end_diacylglycerol_kinase_745623..745773_POSITIVE 455 119 74 74 23 aact:AA02418|3end_peptidyl-tRNA_hydrolase_1661811..1661961_POSITIVE 453 155 114 42 1 aact:AA00764|3end_hemoglobin_binding_protein_A_527347..527497_POSITIVE 445 119 74 49 5 aact:AA02338|3end_conserved_hypothetical_protein;_possible_integral_membrane_protein_1598885..1599035_POSITIVE 436 154 111 112 59 aact:AA02142|3end_outer_membrane_protein_OprM_precursor_1467532..1467682_POSITIVE 434 155 111 89 45 aact:AA00384|3end_conserved_hypothetical_protein_(possible_nitrogen_fixation_protein)_261168..261318_POSITIVE 432 159 113 79 31 aact:AA01611|3end_anthranilate_synthase_component_II_1089619..1089769_POSITIVE 418 160 111 147 96 aact:AA01978|3end_hypothetical_protein_1337257..1337407_POSITIVE 406 156 111 85 43 aact:AA02892|3end_oligopeptide_ABC_transporter,_periplasmic-binding_protein_2027177..2027327_POSITIVE