Origin IGS: taaaaacacctgtaaaaataaccgcacttttcactgaatagctaaaaagtgcggtataaatttcaaatgttttttatcaagcaaagtccagttaaaaaacgcggtggattttgaccgcactttttctttccta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taggaaagaaaaagtgcggtcaaaatccaccgcgttttttaactggactttgcttgataaaaaacatttgaaatttataccgcactttttagctattcagtgaaaagtgcggttatttttacaggtgttttta Mask Tandem Repeat Region ================================================ taaaaacacctgtaaaaataaccgcacttttcactgaatagctaaaaagtgcggtataaatttcaaatgttttttatcaagcaaagtccagttaaaaaacgcggtggattttgaccgcactttttctttccta Find is-nt database================================================ Query_seq: AA02286:AA02288|AA02286:AA02288:sugar ABC transporter, ATP-binding protein:conserved hypothetical protein:->->:1558597..1558729 133 taaaaacacctgtaaaaataaccgcacttttcactgaatagctaaaaagtgcggtataaatttcaaatgttttttatcaagcaaagtccagttaaaaaacgcggtggattttgaccgcactttttctttccta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA02286:AA02288|AA02286:AA02288:sugar ABC transporter, ATP-binding protein:conserved hypothetical protein:->->:1558597..1558729 133 taaaaacacctgtaaaaataaccgcacttttcactgaatagctaaaaagtgcggtataaatttcaaatgttttttatcaagcaaagtccagttaaaaaacgcggtggattttgaccgcactttttctttccta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA02286:AA02288|AA02286:AA02288:sugar ABC transporter, ATP-binding protein:conserved hypothetical protein:->->:1558597..1558729 133 taaaaacacctgtaaaaataaccgcacttttcactgaatagctaaaaagtgcggtataaatttcaaatgttttttatcaagcaaagtccagttaaaaaacgcggtggattttgaccgcactttttctttccta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taaaaacacctgtaaaaataaccgcacttttcactgaatagctaaaaagtgcggtataaatttcaaatgttttttatcaagcaaagtccagttaaaaaacgcggtggattttgaccgcactttttctttccta Predict ORF larger than 30AA ================================================ Protein_Len: 32 Strand: + Start: 38 End: 133 ..................................... M A K K C G I N F K C F L S S K V Q L K N A V D F D R T F S F L taaaaacacctgtaaaaataaccgcacttttcactgaatagctaaaaagtgcggtataaatttcaaatgttttttatcaagcaaagtccagttaaaaaacgcggtggattttgaccgcactttttctttccta 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================================================ taaaaacacctgtaaaaataaccgcacttttcactgaatagctaaaaagtgcggtataaatttcaaatgttttttatcaagcaaagtccagttaaaaaacgcggtggattttgaccgcactttttctttccta Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 82 HP_score: -7.5 Tail_Score: -4.62904 Start: 19 End: 58 Full_Region: aaaacatttgaaatt tataccgcactttttagct attc agtgaaaagtgcggtta tttttacaggtgttt ..................tataccgcactttttagctattcagtgaaaagtgcggtta........................................................................... TransTerm Strand: - Conf: 100 HP_score: -10.8 Tail_Score: -4.41633 Start: 22 End: 54 Full_Region: catttgaaatttata ccgcactttttagct attc agtgaaaagtgcgg ttatttttacaggtg .....................ccgcactttttagctattcagtgaaaagtgcgg............................................................................... Find igs database================================================ Query_seq: AA02286:AA02288|AA02286:AA02288:sugar ABC transporter, ATP-binding protein:conserved hypothetical protein:->->:1558597..1558729 133 taaaaacacctgtaaaaataaccgcacttttcactgaatagctaaaaagtgcggtataaatttcaaatgttttttatcaagcaaagtccagttaaaaaacgcggtggattttgaccgcactttttctttccta Intra-Species Hit: Count: 1 Min: 1 Max: 133 Len: 133 Subject: aact_AA02286_AA02288|sugar ABC transporter, ATP-binding protein:conserved hypothetical protein|POSITIVE:POSITIVE|[1558597,1558729]|133 HSP 1 e-value: 7.0E-70 bit: 264.0 Len: 133 Query Start:1 Query End:133 Subject Strand: POSITIVE Subject Start: 1 Subject End: 133 taaaaacacctgtaaaaataaccgcacttttcactgaatagctaaaaagtgcggtataaatttcaaatgttttttatcaagcaaagtccagttaaaaaacgcggtggattttgaccgcactttttctttccta taaaaacacctgtaaaaataaccgcacttttcactgaatagctaaaaagtgcggtataaatttcaaatgttttttatcaagcaaagtccagttaaaaaacgcggtggattttgaccgcactttttctttccta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAAACACCUGUAAAAAUAACCGCACUUUUCACUGAAUAGCUAAAAAGUGCGGUAUAAAUUUCAAAUGUUUUUUAUCAAGCAAAGUCCAGUUAAAAAACGCGGUGGAUUUUGACCGCACUUUUUCUUUCCUA .(((((((..((........(((((((((((..((....))...)))))))))))........))..))))))).......(((((((((.(..........).))))))))).................... (-27.49) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGGAAAGAAAAAGUGCGGUCAAAAUCCACCGCGUUUUUUAACUGGACUUUGCUUGAUAAAAAACAUUUGAAAUUUAUACCGCACUUUUUAGCUAUUCAGUGAAAAGUGCGGUUAUUUUUACAGGUGUUUUUA .((.((((((((((((((((........)))))))))))).......)))).)).....((((((((((((((..((.(((((((((((((.((....)))))))))))))))))..))).))))))))))). (-40.91) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 478 129 83 211 165 aact:AA02754|5end_conserved_hypothetical_protein_1928949..1929179_POSITIVE 459 123 83 212 172 aact:AA01625|5end_riboflavin_synthase,_beta_chain_1099964..1100194_POSITIVE 452 59 13 139 102 aact:AA00508|5end_SAM-dependent_methyltransferase_353096..353326_POSITIVE 452 59 13 39 2 aact:AA00507|5end_hypothetical_protein_352996..353226_POSITIVE 442 123 83 141 101 aact:AA00126|5end_conserved_hypothetical_protein_91053..91283_POSITIVE 439 124 81 123 79 aact:AA01673|5end_riboflavin_synthase,_alpha_chain_1131477..1131707_POSITIVE 419 66 21 198 153 aact:AA01883|5end_recycling_protein;_permease_1269821..1270051_POSITIVE 405 122 83 211 172 aact:AA00541|5end_conserved_hypothetical_protein_370140..370370_POSITIVE 405 122 83 121 82 aact:AA00540|5end_hypothetical_protein_370050..370280_POSITIVE 399 130 83 163 116 aact:AA02864|5end_glycerol-3-phosphate_transport_protein_2008784..2009014_POSITIVE 393 58 17 167 123 aact:AA00419|5end_conserved_hypothetical_protein_(possible_phosphatidylethanolamine-binding_protein)_284337..284567_POSITIVE 390 130 81 136 83 aact:AA02134|5end_aminopeptidase_N_1456181..1456411_POSITIVE 389 120 72 131 86 aact:AA01146|5end_conserved_hypothetical_protein_784433..784663_POSITIVE 386 125 82 170 127 aact:AA01544|5end_conserved_hypothetical_protein_1034265..1034495_POSITIVE 386 125 82 80 37 aact:AA01543|5end_hypothetical_protein_1034175..1034405_POSITIVE 386 88 46 116 71 aact:AA00065|5end_hypothetical_protein_48854..49084_POSITIVE 384 55 21 102 69 aact:AA01986|5end_pyruvate_dehydrogenase_complex_E2_1348753..1348983_POSITIVE 381 130 85 46 1 aact:AA02862|5end_hypothetical_protein_2008667..2008897_POSITIVE 378 128 89 58 19 aact:AA01204|5end_hypothetical_protein_825015..825245_POSITIVE 376 124 94 169 139 aact:AA02706|5end_2-oxoglutarate_dehydrogenase_E1_component_(decarboxylase_component)_1886843..1887073_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 478 129 83 50 4 aact:AA02751|3end_L-lactate_permease_1928868..1929018_POSITIVE 459 123 83 69 29 aact:AA01624|3end_glucose-6-phosphate_isomerase_1099901..1100051_POSITIVE 452 59 13 52 15 aact:AA00506|3end_ATP-dependent_RNA_helicase_protein_353089..353239_POSITIVE 439 124 81 84 40 aact:AA01672|3end_conserved_hypothetical_protein_1131518..1131668_POSITIVE 419 66 21 62 17 aact:AA01881|3end_adenylate_kinase_1269765..1269915_POSITIVE 399 130 83 147 100 aact:AA02862|3end_hypothetical_protein_2008848..2008998_POSITIVE 393 58 17 58 14 aact:AA00417|3end_outer_membrane_lipoprotein_precursor_(probable_D-methionine-binding_lipoprotein)_284308..284458_POSITIVE 390 130 81 60 7 aact:AA02132|3end_dihydroorotate_dehydrogenase_1456185..1456335_POSITIVE 389 120 72 78 33 aact:AA01145|3end_glycyl-tRNA_synthetase_alpha_subunit_784460..784610_POSITIVE 389 127 81 62 13 aact:AA00010|3end_transposase_orfB_fragment_6297..6447_POSITIVE 387 122 85 38 1 aact:AA00539|3end_ADP-L-glycero-D-manno-heptose-6-epimerase_370047..370197_POSITIVE 386 88 46 128 83 aact:AA00064|3end_ribosomal_small_subunit_pseudouridine_synthase_48946..49096_POSITIVE 384 55 21 70 37 aact:AA01985|3end_pyruvate_dehydrogenase,_E1_component_1348801..1348951_POSITIVE 376 124 94 41 11 aact:AA02704|3end_dihydrolipoamide_succinyltransferase_1886795..1886945_POSITIVE 375 129 83 81 35 aact:AA02112|3end_cell_division_protein_1442184..1442334_POSITIVE 374 69 21 71 26 aact:AA00046|3end_formate_dependent_nitrite_reductase,_cytochrome-c_type_protein_36756..36906_POSITIVE 373 127 94 134 101 aact:AA02998|3end_conserved_hypothetical_protein_2094350..2094500_POSITIVE 368 130 82 83 46 aact:AA01351|3end_probable_sulfatase_916393..916543_POSITIVE 365 123 81 63 16 aact:AA00089|3end_S-adenosylmethionine_synthase;_methionine_adenosyltransferase_67749..67899_POSITIVE 362 124 86 89 53 aact:AA01347|3end_conserved_hypothetical_protein_913579..913729_POSITIVE