Origin IGS: atatatcctctgtcatgttcgatttatctaaaaaaatgcctgcaatgataatattaactgcttagaaaatcacgcaatttatcacgttttacgcaaatta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taatttgcgtaaaacgtgataaattgcgtgattttctaagcagttaatattatcattgcaggcatttttttagataaatcgaacatgacagaggatatat Mask Tandem Repeat Region ================================================ atatatcctctgtcatgttcgatttatctaaaaaaatgcctgcaatgataatattaactgcttagaaaatcacgcaatttatcacgttttacgcaaatta Find is-nt database================================================ Query_seq: AA02166:AA02167|AA02166:AA02167:phenylalanyl-tRNA synthetase, alpha subunit:hypothetical protein:->->:1483327..1483426 100 atatatcctctgtcatgttcgatttatctaaaaaaatgcctgcaatgataatattaactgcttagaaaatcacgcaatttatcacgttttacgcaaatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA02166:AA02167|AA02166:AA02167:phenylalanyl-tRNA synthetase, alpha subunit:hypothetical protein:->->:1483327..1483426 100 atatatcctctgtcatgttcgatttatctaaaaaaatgcctgcaatgataatattaactgcttagaaaatcacgcaatttatcacgttttacgcaaatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA02166:AA02167|AA02166:AA02167:phenylalanyl-tRNA synthetase, alpha subunit:hypothetical protein:->->:1483327..1483426 100 atatatcctctgtcatgttcgatttatctaaaaaaatgcctgcaatgataatattaactgcttagaaaatcacgcaatttatcacgttttacgcaaatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 atatatcctctgtcatgttcgatttatctaaaaaaatgcctgcaatgataatattaactgcttagaaaatcacgcaatttatcacgttttacgcaaatta Predict ORF larger than 30AA ================================================ atatatcctctgtcatgttcgatttatctaaaaaaatgcctgcaatgataatattaactgcttagaaaatcacgcaatttatcacgttttacgcaaatta 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================================================ atatatcctctgtcatgttcgatttatctaaaaaaatgcctgcaatgataatattaactgcttagaaaatcacgcaatttatcacgttttacgcaaatta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA02166:AA02167|AA02166:AA02167:phenylalanyl-tRNA synthetase, alpha subunit:hypothetical protein:->->:1483327..1483426 100 atatatcctctgtcatgttcgatttatctaaaaaaatgcctgcaatgataatattaactgcttagaaaatcacgcaatttatcacgttttacgcaaatta Intra-Species Hit: Count: 1 Min: 1 Max: 100 Len: 100 Subject: aact_AA02166_AA02167|phenylalanyl-tRNA synthetase, alpha subunit:hypothetical protein|POSITIVE:POSITIVE|[1483327,1483426]|100 HSP 1 e-value: 8.0E-38 bit: 157.0 Len: 100 Query Start:1 Query End:100 Subject Strand: POSITIVE Subject Start: 1 Subject End: 100 atatatcctctgtcatgttcgatttatctnnnnnnntgcctgcaatgataatattaactgcttagaaaatcacgcaatttatcacgttttacgcaaatta atatatcctctgtcatgttcgatttatctaaaaaaatgcctgcaatgataatattaactgcttagaaaatcacgcaatttatcacgttttacgcaaatta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUAUAUCCUCUGUCAUGUUCGAUUUAUCUAAAAAAAUGCCUGCAAUGAUAAUAUUAACUGCUUAGAAAAUCACGCAAUUUAUCACGUUUUACGCAAAUUA ..........((((((((..(((((........)))).)..)).))))))........(((.((((.....(((..........))))))).)))..... ( -6.40) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUUUGCGUAAAACGUGAUAAAUUGCGUGAUUUUCUAAGCAGUUAAUAUUAUCAUUGCAGGCAUUUUUUUAGAUAAAUCGAACAUGACAGAGGAUAUAU ...(((((((...(((..(....)..)))(((((((((((((((..........)))))..........))))).)))))....))).))))........ (-12.40) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 243 76 35 185 136 aact:AA01755|5end_cobalt_membrane_transport_protein_1185825..1186055_POSITIVE 242 41 3 135 93 aact:AA01292|5end_single-stranded_DNA_binding_protein_875827..876057_POSITIVE 235 100 60 213 172 aact:AA01974|5end_conserved_hypothetical_protein_1335891..1336121_POSITIVE 217 77 38 49 11 aact:AA01881|5end_adenylate_kinase_1269044..1269274_POSITIVE 216 55 12 101 55 aact:AA01363|5end_hypothetical_protein_922505..922735_POSITIVE 214 75 36 93 55 aact:AA01224|5end_CTP_synthase_836221..836451_POSITIVE 214 47 1 196 151 aact:AA01072|5end_GTP_pyrophosphokinase_(ppGpp_synthetase_I)_/_ATP:GTP3'-pyrophosphotransferase_742934..743164_POSITIVE 210 94 57 200 151 aact:AA02439|5end_integral_membrane_protein;_possible_ABC_transporter_permease_1683902..1684132_POSITIVE 210 47 5 230 180 aact:AA02050|5end_1-deoxy-D-xylulose_5-phosphate_synthase_1395625..1395855_POSITIVE 210 47 5 131 81 aact:AA02049|5end_hypothetical_protein_1395526..1395756_POSITIVE 207 97 58 158 118 aact:AA01316|5end_hypothetical_protein_891262..891492_POSITIVE 202 44 6 70 34 aact:AA01741|5end_6-pyruvoyl_tetrahydrobiopterin_synthase_1177193..1177423_POSITIVE 202 100 62 176 130 aact:AA00576|5end_conserved_hypothetical_protein_(possible_translation_factor)_394020..394250_POSITIVE 201 49 12 33 3 aact:AA01615|5end_lipoprotein_releasing_system_transmembrane_1091186..1091416_POSITIVE 199 100 56 203 152 aact:AA02030|5end_threonyl-tRNA_synthetase_1382171..1382401_POSITIVE 198 44 4 172 134 aact:AA02461|5end_ferrochelatase_1700991..1701221_POSITIVE 198 43 6 189 154 aact:AA01565|5end_conserved_hypothetical_protein_1050711..1050941_POSITIVE 198 79 31 83 30 aact:AA01250|5end_nadAB_transcriptional_regulator_850432..850662_POSITIVE 197 77 33 205 163 aact:AA02939|5end_phosphoserine_phosphatase_2056881..2057111_POSITIVE 197 96 57 129 82 aact:AA01181|5end_conserved_hypothetical_protein_808774..809004_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 214 58 13 77 35 aact:AA02793|3end_inositol-1-monophosphatase;_extragenic_suppressor_protein_1961858..1962008_POSITIVE 210 47 5 104 54 aact:AA02048|3end_galactitol_utilization_operon_repressor_1395579..1395729_POSITIVE 202 44 6 40 4 aact:AA01740|3end_conserved_hypothetical_protein_1177243..1177393_POSITIVE 201 98 59 111 72 aact:AA00971|3end_conserved_hypothetical_protein_677875..678025_POSITIVE 200 45 5 106 69 aact:AA01705|3end_beta-galactosidase_1157980..1158130_POSITIVE 197 96 57 76 29 aact:AA01179|3end_beta-ketoacyl-ACP_reductase;_short-chain_alcohol_dehydrogenase_808801..808951_POSITIVE 193 75 35 62 8 aact:AA00980|3end_hypothetical_protein_685409..685559_POSITIVE 191 94 72 126 104 aact:AA01337|3end_cell_division_protein_N_905031..905181_POSITIVE 191 100 56 108 57 aact:AA00312|3end_conserved_hypothetical_protein_(possible_hydroxypyruvate_isomerase)_212922..213072_POSITIVE 190 74 35 66 28 aact:AA01232|3end_30S_ribosomal_protein_S8_840914..841064_POSITIVE 190 95 59 88 49 aact:AA01187|3end_conserved_hypothetical_protein_813992..814142_POSITIVE 188 86 42 116 77 aact:AA01161|3end_araC-like_transcriptional_regulator_795079..795229_POSITIVE 187 97 51 97 37 aact:AA01648|3end_alpha-amylase_protein;_1,4-alpha-D-glucan_glucanohydrolase_1117298..1117448_POSITIVE 187 24 4 131 109 aact:AA00446|3end_transposase_311566..311716_POSITIVE 187 97 59 72 43 aact:AA00299|3end_hypothetical_protein_204434..204584_POSITIVE 185 58 16 61 18 aact:AA00344|3end_preprotein_translocase_secE_subunit_231505..231655_POSITIVE 182 93 58 145 113 aact:AA01997|3end_probable_translation_factor_1356864..1357014_POSITIVE 180 99 57 77 32 aact:AA02545|3end_conserved_hypothetical_protein_1774221..1774371_POSITIVE 179 97 57 112 74 aact:AA02108|3end_2-acylglycerophosphoethanolamine_acyltransferase;_acyl-acyl_carrier_protein_synthetase_1436643..1436793_POSITIVE 179 94 74 27 6 aact:AA02038|3end_50S_ribosomal_protein_L35_1387326..1387476_POSITIVE