Origin IGS: aaaatttatattttcatgacattcggcagtaattttcaaaaaaatatagtcaagccaaataaaatttagtataatagaggtagttattatacagaattagaagagaaacgc .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 gcgtttctcttctaattctgtataataactacctctattatactaaattttatttggcttgactatatttttttgaaaattactgccgaatgtcatgaaaatataaatttt Mask Tandem Repeat Region ================================================ aaaatttatattttcatgacattcggcagtaattttcaaaaaaatatagtcaagccaaataaaatttagtataatagaggtagttattatacagaattagaagagaaacgc Find is-nt database================================================ Query_seq: SSA_0936:SSA_0937|SSA_0936:SSA_0937:FAD synthase, putative:Arsenate reductase, glutaredoxin family, putative:->->:946212..946322 111 aaaatttatattttcatgacattcggcagtaattttcaaaaaaatatagtcaagccaaataaaatttagtataatagaggtagttattatacagaattagaagagaaacgc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SSA_0936:SSA_0937|SSA_0936:SSA_0937:FAD synthase, putative:Arsenate reductase, glutaredoxin family, putative:->->:946212..946322 111 aaaatttatattttcatgacattcggcagtaattttcaaaaaaatatagtcaagccaaataaaatttagtataatagaggtagttattatacagaattagaagagaaacgc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SSA_0936:SSA_0937|SSA_0936:SSA_0937:FAD synthase, putative:Arsenate reductase, glutaredoxin family, putative:->->:946212..946322 111 aaaatttatattttcatgacattcggcagtaattttcaaaaaaatatagtcaagccaaataaaatttagtataatagaggtagttattatacagaattagaagagaaacgc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aaaatttatattttcatgacattcggcagtaattttcaaaaaaatatagtcaagccaaataaaatttagtataatagaggtagttattatacagaattagaagagaaacgc Predict ORF larger than 30AA ================================================ Protein_Len: 30 Strand: - Start: 1 End: 90 F N I N E H C E A T I K L F I Y D L W I F N L I I S T T I M ..................... aaaatttatattttcatgacattcggcagtaattttcaaaaaaatatagtcaagccaaataaaatttagtataatagaggtagttattatacagaattagaagagaaacgc Predict Promoter with matrix: RpoD-15 score > 80================================================ Predict Promoter with matrix: RpoD-16 score > 80================================================ Predict Promoter with matrix: RpoD-17 score > 80================================================ PromScan Matrix: RpoD-17 Strand: + Score: 81 Start: 46 End: 75 .............................................ATAGTCAAGCCAAATAAAATTTAGTATAAT.................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ aaaatttatattttcatgacattcggcagtaattttcaaaaaaatatagtcaagccaaataaaatttagtataatagaggtagttattatacagaattagaagagaaacgc Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SSA_0936:SSA_0937|SSA_0936:SSA_0937:FAD synthase, putative:Arsenate reductase, glutaredoxin family, putative:->->:946212..946322 111 aaaatttatattttcatgacattcggcagtaattttcaaaaaaatatagtcaagccaaataaaatttagtataatagaggtagttattatacagaattagaagagaaacgc Intra-Species Hit: Count: 1 Min: 1 Max: 111 Len: 111 Subject: NC_009009_SSA_0936_SSA_0937|FAD synthase, putative:Arsenate reductase, glutaredoxin family, putative|POSITIVE:POSITIVE|[946212,946322]|111 HSP 1 e-value: 2.0E-44 bit: 178.0 Len: 111 Query Start:1 Query End:111 Subject Strand: POSITIVE Subject Start: 1 Subject End: 111 aaaatttatattttcatgacattcggcagtaattttcnnnnnnntatagtcaagccaaataaaatttagtataatagaggtagttattatacagaattagaagagaaacgc aaaatttatattttcatgacattcggcagtaattttcaaaaaaatatagtcaagccaaataaaatttagtataatagaggtagttattatacagaattagaagagaaacgc Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAAAUUUAUAUUUUCAUGACAUUCGGCAGUAAUUUUCAAAAAAAUAUAGUCAAGCCAAAUAAAAUUUAGUAUAAUAGAGGUAGUUAUUAUACAGAAUUAGAAGAGAAACGC ..........(((((.........(((..........................)))......(((((.(((((((((......))))))))).)))))....))))).... (-14.07) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GCGUUUCUCUUCUAAUUCUGUAUAAUAACUACCUCUAUUAUACUAAAUUUUAUUUGGCUUGACUAUAUUUUUUUGAAAAUUACUGCCGAAUGUCAUGAAAAUAUAAAUUUU ...((((......((((..((((((((........))))))))..)))).((((((((........(((((....)))))....))))))))....))))........... (-14.70) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 336 57 22 90 56 NC_009009:SSA_1906|5end_Diadenosine_tetraphosphate_(Ap4A)_hydrolase_(histidine_triad_protein,_cell-cycle_regulation),_putative_1900026..1900256_POSITIVE 204 56 17 231 196 NC_009009:SSA_1446|5end_Histidinol_dehydrogenase,_putative_1449190..1449420_NEGATIVE 199 29 16 22 9 NC_009009:SSA_1076|5end_hypothetical_protein_1094227..1094457_POSITIVE 188 37 11 211 185 NC_009009:SSA_1815|5end_hypothetical_protein_1800912..1801142_NEGATIVE 185 45 11 222 195 NC_009009:SSA_1233|5end_Membrane_protein,_YqiH_family,_putative_1256896..1257126_POSITIVE 185 110 67 146 102 NC_009009:SSA_0796|5end_ABC-NBD_transporters_with_duplicated_ATPase_domains,_putative_777085..777315_POSITIVE 180 56 24 55 26 NC_009009:SSA_2271|5end_hypothetical_protein_2272450..2272680_NEGATIVE 180 57 25 76 54 NC_009009:SSA_2121|5end_Cell_wall_surface_anchor_family_protein,_putative_2126907..2127137_NEGATIVE 178 30 9 208 186 NC_009009:SSA_1055|5end_Conserved_uncharacterized_protein_1070899..1071129_POSITIVE 178 39 18 70 44 NC_009009:SSA_0427|5end_DNA-binding_transcriptional_activator,_SARP_family,_putative_424497..424727_POSITIVE 177 60 15 78 40 NC_009009:SSA_2083|5end_hypothetical_protein_2087969..2088199_NEGATIVE 173 57 13 98 38 NC_009009:SSA_1034|5end_Conserved_uncharacterized_protein_1049585..1049815_POSITIVE 172 110 77 57 23 NC_009009:SSA_0067|5end_Acyltransferase_(yrhL-like_subfamily_of_SGNH-hydrolases),_putative_68005..68235_POSITIVE 171 39 5 171 132 NC_009009:SSA_1936|5end_3-oxoacyl-[acyl-carrier_protein]_reductase,_putative_1923838..1924068_NEGATIVE 171 42 2 51 9 NC_009009:SSA_1048|5end_ABC_transporter_ATP-binding_protein-spermidine/putrescine_transport,_putative_1062947..1063177_POSITIVE 170 54 18 79 41 NC_009009:SSA_0887|5end_hypothetical_protein_881266..881496_NEGATIVE 169 39 11 192 161 NC_009009:SSA_1487|5end_Conserved_uncharacterized_protein_1494190..1494420_NEGATIVE 168 29 1 198 168 NC_009009:SSA_0830|5end_Glycosyltransferase,_putative_812430..812660_POSITIVE 168 47 9 100 61 NC_009009:SSA_0624|5end_hypothetical_protein_615079..615309_POSITIVE 168 93 54 199 155 NC_009009:SSA_0088|5end_V-type_sodium_ATPase,_subunit_C,_putative_88930..89160_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 214 100 52 62 13 NC_009009:SSA_2171|3end_hypothetical_protein_2170224..2170374_NEGATIVE 199 29 16 18 5 NC_009009:SSA_1075|3end_Coproporphyrinogen_III_oxidase,_putative_1094303..1094453_POSITIVE 192 57 22 44 4 NC_009009:SSA_0383|3end_Beta-glucosidase,_putative_376053..376203_POSITIVE 185 110 67 46 2 NC_009009:SSA_0795|3end_hypothetical_protein_777065..777215_POSITIVE 177 60 15 74 36 NC_009009:SSA_2084|3end_Phosphotransferase_system_(PTS),_galactitol-specific_IIC_component,_putative_2087973..2088123_NEGATIVE 177 59 11 75 16 NC_009009:SSA_0931|3end_hypothetical_protein_941335..941485_POSITIVE 172 110 77 67 33 NC_009009:SSA_0066|3end_hypothetical_protein_68095..68245_POSITIVE 167 58 11 144 101 NC_009009:SSA_0511|3end_Propanediol_utilization_kinase,_putative_510556..510706_POSITIVE 166 88 45 67 18 NC_009009:SSA_0422|3end_Phosphoglycerate_mutase_family_protein,_putative_420839..420989_POSITIVE 166 46 1 54 9 NC_009009:SSA_0320|3end_hypothetical_protein_313824..313974_POSITIVE 164 57 17 71 32 NC_009009:SSA_0440|3end_30S_ribosomal_protein_S18,_putative_441465..441615_POSITIVE 163 109 65 87 48 NC_009009:SSA_1892|3end_hypothetical_protein_1889068..1889218_NEGATIVE 162 42 22 117 97 NC_009009:SSA_1285|3end_hypothetical_protein_1304993..1305143_NEGATIVE 160 55 16 43 2 NC_009009:SSA_1238|3end_hypothetical_protein_1262402..1262552_NEGATIVE 160 56 24 148 108 NC_009009:SSA_0599|3end_hypothetical_protein_589007..589157_POSITIVE 159 87 48 80 36 NC_009009:SSA_0180|3end_hypothetical_protein_184989..185139_POSITIVE 157 29 13 140 120 NC_009009:SSA_0922|3end_hypothetical_protein_932225..932375_NEGATIVE 157 57 20 88 41 NC_009009:SSA_0703|3end_Citrate_synthase,_putative_689352..689502_POSITIVE 156 70 25 111 69 NC_009009:SSA_0367|3end_hypothetical_protein_359291..359441_POSITIVE 155 62 21 47 3 NC_009009:SSA_1436|3end_hypothetical_protein_1442199..1442349_NEGATIVE