Origin IGS: taaccaaacaaaaaggagaagccctcgcttctccttttctttcgctttaaagtgcggtcgttttaaaaaacgtttttcaaaacgaccgcacttttatacgatttggcattcactta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taagtgaatgccaaatcgtataaaagtgcggtcgttttgaaaaacgttttttaaaacgaccgcactttaaagcgaaagaaaaggagaagcgagggcttctcctttttgtttggtta Mask Tandem Repeat Region ================================================ taaccaaacaaaaaggagaagccctcgcttctccttttctttcgctttaaagtgcggtcgttttaaaaaacgtttttcaaaacgaccgcacttttatacgatttggcattcactta Find is-nt database================================================ Query_seq: AA00764:AA00766|AA00764:AA00766:hemoglobin binding protein A:heat shock protein B25.3 (HSP-70 cofactor):->->:527408..527523 116 taaccaaacaaaaaggagaagccctcgcttctccttttctttcgctttaaagtgcggtcgttttaaaaaacgtttttcaaaacgaccgcacttttatacgatttggcattcactta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA00764:AA00766|AA00764:AA00766:hemoglobin binding protein A:heat shock protein B25.3 (HSP-70 cofactor):->->:527408..527523 116 taaccaaacaaaaaggagaagccctcgcttctccttttctttcgctttaaagtgcggtcgttttaaaaaacgtttttcaaaacgaccgcacttttatacgatttggcattcactta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA00764:AA00766|AA00764:AA00766:hemoglobin binding protein A:heat shock protein B25.3 (HSP-70 cofactor):->->:527408..527523 116 taaccaaacaaaaaggagaagccctcgcttctccttttctttcgctttaaagtgcggtcgttttaaaaaacgtttttcaaaacgaccgcacttttatacgatttggcattcactta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taaccaaacaaaaaggagaagccctcgcttctccttttctttcgctttaaagtgcggtcgttttaaaaaacgtttttcaaaacgaccgcacttttatacgatttggcattcactta Predict ORF larger than 30AA ================================================ taaccaaacaaaaaggagaagccctcgcttctccttttctttcgctttaaagtgcggtcgttttaaaaaacgtttttcaaaacgaccgcacttttatacgatttggcattcactta 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================================================ taaccaaacaaaaaggagaagccctcgcttctccttttctttcgctttaaagtgcggtcgttttaaaaaacgtttttcaaaacgaccgcacttttatacgatttggcattcactta Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 100 HP_score: -19.6 Tail_Score: -4.44974 Start: 52 End: 91 Full_Region: TTCTTTCGCTTTAAA GTGCGGTCGTTTTAAAAA ACGT TTTTCAAAACGACCGCAC TTTTATACGATTTGG ...................................................GTGCGGTCGTTTTAAAAAACGTTTTTCAAAACGACCGCAC......................... TransTerm Strand: - Conf: 100 HP_score: -21.8 Tail_Score: -3.53012 Start: 52 End: 91 Full_Region: ccaaatcgtataaaa gtgcggtcgttttgaaaa acgt tttttaaaacgaccgcac tttaaagcgaaagaa ...................................................gtgcggtcgttttgaaaaacgttttttaaaacgaccgcac......................... TransTerm Strand: + Conf: 71 HP_score: -5.3 Tail_Score: -4.56597 Start: 59 End: 72 Full_Region: GCTTTAAAGTGCGGT CGTTT TAAA AAACG TTTTTCAAAACGACC ..........................................................CGTTTTAAAAAACG............................................ Find igs database================================================ Query_seq: AA00764:AA00766|AA00764:AA00766:hemoglobin binding protein A:heat shock protein B25.3 (HSP-70 cofactor):->->:527408..527523 116 taaccaaacaaaaaggagaagccctcgcttctccttttctttcgctttaaagtgcggtcgttttaaaaaacgtttttcaaaacgaccgcacttttatacgatttggcattcactta Intra-Species Hit: Count: 1 Min: 1 Max: 116 Len: 116 Subject: aact_AA00764_AA00766|hemoglobin binding protein A:heat shock protein B25.3 (HSP-70 cofactor)|POSITIVE:POSITIVE|[527408,527523]|116 HSP 1 e-value: 8.0E-60 bit: 230.0 Len: 116 Query Start:1 Query End:116 Subject Strand: POSITIVE Subject Start: 1 Subject End: 116 taaccaaacaaaaaggagaagccctcgcttctccttttctttcgctttaaagtgcggtcgttttaaaaaacgtttttcaaaacgaccgcacttttatacgatttggcattcactta taaccaaacaaaaaggagaagccctcgcttctccttttctttcgctttaaagtgcggtcgttttaaaaaacgtttttcaaaacgaccgcacttttatacgatttggcattcactta HSP 2 e-value: 3.0E-13 bit: 75.8 Len: 46 Query Start:49 Query End:94 Subject Strand: NEGATIVE Subject Start: 49 Subject End: 94 ................................................aaagtgcggtcgttttaaaaaacgtttttcaaaacgaccgcacttt...................... ................................................aaagtgcggtcgttttgaaaaacgttttttaaaacgaccgcacttt...................... Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAACCAAACAAAAAGGAGAAGCCCUCGCUUCUCCUUUUCUUUCGCUUUAAAGUGCGGUCGUUUUAAAAAACGUUUUUCAAAACGACCGCACUUUUAUACGAUUUGGCAUUCACUUA ...(((((..((((((((((((....))))))))))))...(((....((((((((((((((((.((((....)))).))))))))))))))))....)))))))).......... (-47.20) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAGUGAAUGCCAAAUCGUAUAAAAGUGCGGUCGUUUUGAAAAACGUUUUUUAAAACGACCGCACUUUAAAGCGAAAGAAAAGGAGAAGCGAGGGCUUCUCCUUUUUGUUUGGUUA .........(((((.((((.(.(((((((((((((((((((((....))))))))))))))))))))).).))))..(((((((((((((....)))))))))))))..))))).. (-56.80) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 587 95 51 152 108 aact:AA01648|5end_alpha-amylase_protein;_1,4-alpha-D-glucan_glucanohydrolase_1115170..1115400_POSITIVE 587 95 51 51 7 aact:AA01646|5end_hypothetical_protein_1115069..1115299_POSITIVE 569 95 51 170 126 aact:AA00721|5end_probable_beta-N-acetylhexosaminidase_(lacto-N-biosidase);_dispersin_B_494739..494969_POSITIVE 569 95 51 58 14 aact:AA00719|5end_hypothetical_protein_494627..494857_POSITIVE 544 95 51 151 107 aact:AA02888|5end_ssrA-binding_protein,_small_protein_B_2024628..2024858_POSITIVE 539 100 51 223 177 aact:AA02778|5end_hypothetical_protein_1942585..1942815_POSITIVE 539 95 51 172 128 aact:AA01117|5end_signal_recognition_particle_protein_54_(GTP-binding_export_factor)_767919..768149_POSITIVE 525 90 44 118 75 aact:AA00792|5end_conserved_hypothetical_protein_543142..543372_POSITIVE 517 93 51 166 124 aact:AA00356|5end_DNA-directed_RNA_polymerase,_beta'_chain_238937..239167_POSITIVE 516 94 51 151 108 aact:AA00386|5end_aspartate--ammonia_ligase_(asparagine_synthetase_A)_261150..261380_POSITIVE 498 94 51 158 115 aact:AA02700|5end_succinyl-CoA_synthase,_alpha_subunit_1883256..1883486_POSITIVE 436 99 51 173 120 aact:AA01967|5end_hypothetical_protein_1331511..1331741_POSITIVE 421 99 51 171 122 aact:AA01981|5end_4-alpha-glucanotransferase_1337202..1337432_POSITIVE 414 95 54 177 137 aact:AA00212|5end_ribokinase_146056..146286_POSITIVE 414 95 54 76 36 aact:AA00211|5end_hypothetical_protein_145955..146185_POSITIVE 412 96 53 225 176 aact:AA00579|5end_probable_DNA_recombination_protein_395265..395495_POSITIVE 404 95 51 123 73 aact:AA02276|5end_pseudouridine_synthase_Rlu_family_1549932..1550162_POSITIVE 396 90 41 152 100 aact:AA01846|5end_conserved_hypothetical_protein_1241843..1242073_POSITIVE 395 100 51 140 93 aact:AA02410|5end_cell_division_protein_1655429..1655659_POSITIVE 391 109 61 91 40 aact:AA02965|5end_hypothetical_protein_2074069..2074299_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 587 95 51 86 42 aact:AA01645|3end_ferric_transport_ABC-related_ATP-binding_protein_1115184..1115334_POSITIVE 569 95 51 74 30 aact:AA00718|3end_ABC-related_ATP-binding_protein;_MRP_protein_494723..494873_POSITIVE 558 100 53 48 1 aact:AA00764|3end_hemoglobin_binding_protein_A_527347..527497_POSITIVE 544 95 51 77 33 aact:AA02886|3end_OBG-related_GTP-binding_protein_2024634..2024784_POSITIVE 539 100 51 85 39 aact:AA02777|3end_tRNA-guanine_transglycosylase_1942527..1942677_POSITIVE 517 93 51 60 18 aact:AA00355|3end_DNA-directed_RNA_polymerase_beta_chain_(transcriptase_beta_chain)_238911..239061_POSITIVE 516 94 51 89 46 aact:AA00384|3end_conserved_hypothetical_protein_(possible_nitrogen_fixation_protein)_261168..261318_POSITIVE 436 99 51 96 43 aact:AA01966|3end_2-amino-4-hydroxy-6-hydroxymethyldihydropteridine_pyrophosphokinase_1331514..1331664_POSITIVE 421 99 51 146 97 aact:AA01978|3end_hypothetical_protein_1337257..1337407_POSITIVE 414 95 54 73 33 aact:AA00209|3end_D-ribose_ABC_transporter,_periplasmic-binding_protein_146032..146182_POSITIVE 412 96 53 81 32 aact:AA00578|3end_DNA_topoisomerase_395201..395351_POSITIVE 411 97 51 78 32 aact:AA02562|3end_adenine_specific_methylase_1785146..1785296_POSITIVE 411 95 51 76 32 aact:AA00629|3end_inosine_5'_monophosphate_dehydrogenase_(IMP_dehydrogenase)_433469..433619_POSITIVE 404 95 51 66 16 aact:AA02275|3end_conserved_hypothetical_protein_1549955..1550105_POSITIVE 398 105 66 140 101 aact:AA01259|3end_protoporphyrinogen_oxidase_854943..855093_POSITIVE 397 108 61 50 1 aact:AA00790|3end_recombination_DNA_repair_protein_543134..543284_POSITIVE 391 109 61 70 19 aact:AA02964|3end_opacity_associated_protein_A_2074128..2074278_POSITIVE 391 108 62 105 56 aact:AA01992|3end_protease_IV;_signal_peptide_peptidase;_Endopeptidase_IV_1355004..1355154_POSITIVE 390 95 51 82 41 aact:AA02899|3end_oligopeptide_ABC_transporter,_ATP-binding_protein_2031138..2031288_POSITIVE 390 107 63 121 75 aact:AA00732|3end_citrate_lyase_ligase_502427..502577_POSITIVE