Origin IGS: cttattttcccctattaaaatgagttttcttcaattgtatcatattaatagatatttagtaacaaaattttataaaaaaagccattgcaaaattatttacaatggctatatataaaagtt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aacttttatatatagccattgtaaataattttgcaatggctttttttataaaattttgttactaaatatctattaatatgatacaattgaagaaaactcattttaataggggaaaataag Mask Tandem Repeat Region ================================================ cttattttcccctattaaaatgagttttcttcaattgtatcatattaatagatatttagtaacaaaattttataaaaaaagccattgcaaaattatttacaatggctatatataaaagtt Find is-nt database================================================ Query_seq: FN0799:FN0800|FN0799:FN0800:Isoamylase:Amino acid-binding protein:<-<-:1459917..1460036 120 cttattttcccctattaaaatgagttttcttcaattgtatcatattaatagatatttagtaacaaaattttataaaaaaagccattgcaaaattatttacaatggctatatataaaagtt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: FN0799:FN0800|FN0799:FN0800:Isoamylase:Amino acid-binding protein:<-<-:1459917..1460036 120 cttattttcccctattaaaatgagttttcttcaattgtatcatattaatagatatttagtaacaaaattttataaaaaaagccattgcaaaattatttacaatggctatatataaaagtt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: FN0799:FN0800|FN0799:FN0800:Isoamylase:Amino acid-binding protein:<-<-:1459917..1460036 120 cttattttcccctattaaaatgagttttcttcaattgtatcatattaatagatatttagtaacaaaattttataaaaaaagccattgcaaaattatttacaatggctatatataaaagtt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 cttattttcccctattaaaatgagttttcttcaattgtatcatattaatagatatttagtaacaaaattttataaaaaaagccattgcaaaattatttacaatggctatatataaaagtt Predict ORF larger than 30AA ================================================ Protein_Len: 33 Strand: + Start: 14 End: 112 ............. M K M S F L Q L Y H I N R Y L V T K F Y K K S H C K I I Y N G Y I ........ cttattttcccctattaaaatgagttttcttcaattgtatcatattaatagatatttagtaacaaaattttataaaaaaagccattgcaaaattatttacaatggctatatataaaagtt 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================================================ cttattttcccctattaaaatgagttttcttcaattgtatcatattaatagatatttagtaacaaaattttataaaaaaagccattgcaaaattatttacaatggctatatataaaagtt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: FN0799:FN0800|FN0799:FN0800:Isoamylase:Amino acid-binding protein:<-<-:1459917..1460036 120 cttattttcccctattaaaatgagttttcttcaattgtatcatattaatagatatttagtaacaaaattttataaaaaaagccattgcaaaattatttacaatggctatatataaaagtt Intra-Species Hit: Count: 1 Min: 1 Max: 120 Len: 120 Subject: NC_003454_FN0799_FN0800|Isoamylase:Amino acid-binding protein|NEGATIVE:NEGATIVE|[1459917,1460036]|120 HSP 1 e-value: 1.0E-49 bit: 196.0 Len: 120 Query Start:1 Query End:120 Subject Strand: POSITIVE Subject Start: 1 Subject End: 120 cttattttcccctattaaaatgagttttcttcaattgtatcatattaatagatatttagtaacaaaattttatnnnnnnngccattgcaaaattatttacaatggctatatataaaagtt cttattttcccctattaaaatgagttttcttcaattgtatcatattaatagatatttagtaacaaaattttataaaaaaagccattgcaaaattatttacaatggctatatataaaagtt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CUUAUUUUCCCCUAUUAAAAUGAGUUUUCUUCAAUUGUAUCAUAUUAAUAGAUAUUUAGUAACAAAAUUUUAUAAAAAAAGCCAUUGCAAAAUUAUUUACAAUGGCUAUAUAUAAAAGUU ...........(((((((.((((................)))).)))))))................(((((((.....((((((((.(((....))).))))))))...)))))))... (-19.69) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AACUUUUAUAUAUAGCCAUUGUAAAUAAUUUUGCAAUGGCUUUUUUUAUAAAAUUUUGUUACUAAAUAUCUAUUAAUAUGAUACAAUUGAAGAAAACUCAUUUUAAUAGGGGAAAAUAAG ...(((((((...((((((((((((....)))))))))))).....)))))))...............((((((((.((((................)))).)))))))).......... (-26.19) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 668 50 1 141 92 NC_003454:FN0799|5end_Isoamylase_1459826..1460056_NEGATIVE 241 107 76 227 194 NC_003454:FN0165|5end_hypothetical_protein_793491..793721_POSITIVE 218 49 11 97 66 NC_003454:FN0941|5end_Gamma-glutamyltranspeptidase_1595266..1595496_NEGATIVE 197 35 1 52 12 NC_003454:FN0381|5end_hypothetical_protein_1012348..1012578_POSITIVE 191 120 79 55 19 NC_003454:FN0296|5end_Hypothetical_cytosolic_protein_929789..930019_NEGATIVE 189 45 1 35 3 NC_003454:FN0971|5end_Huntington_interacting_Protein_HYPE_1624273..1624503_NEGATIVE 185 44 10 137 97 NC_003454:FN1346|5end_Hypothetical_cytosolic_protein_1999579..1999809_NEGATIVE 181 53 11 101 54 NC_003454:FN0199|5end_hypothetical_protein_825783..826013_POSITIVE 180 106 82 37 8 NC_003454:FN0222|5end_Melibiose_carrier_protein_846812..847042_POSITIVE 174 112 80 46 16 NC_003454:FN1104|5end_Holliday_junction_DNA_helicase_ruvA_1749453..1749683_POSITIVE 174 58 25 94 57 NC_003454:FN2125|5end_DNA_gyrase_subunit_A_636160..636390_NEGATIVE 173 46 2 147 94 NC_003454:FN0871|5end_3-dehydroquinate_synthase_1531767..1531997_NEGATIVE 172 39 11 80 54 NC_003454:FN0216|5end_3-oxoacyl-[acyl-carrier_protein]_reductase_840864..841094_NEGATIVE 172 44 1 139 87 NC_003454:FN2044|5end_LSU_ribosomal_protein_L33P_550109..550339_NEGATIVE 171 106 68 180 142 NC_003454:FN0462|5end_DNA_mismatch_repair_protein_mutL_1107184..1107414_POSITIVE 170 45 2 152 94 NC_003454:FN1464|5end_1-deoxy-D-xylulose-5-phosphate_synthase_2147705..2147935_NEGATIVE 170 47 5 155 103 NC_003454:FN1579|5end_Cysteinyl-tRNA_synthetase_90205..90435_NEGATIVE 168 45 2 135 88 NC_003454:FN0240|5end_Thymidylate_synthase_863894..864124_POSITIVE 167 43 1 84 41 NC_003454:FN1452|5end_Cell_division_protein_ftsA_2134076..2134306_NEGATIVE 167 36 7 109 76 NC_003454:FN1365|5end_GTP-binding_protein_2016739..2016969_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 220 107 62 83 35 NC_003454:FN1132|3end_Nicotinamide-nucleotide_adenylyltransferase_1780254..1780404_POSITIVE 206 109 68 79 31 NC_003454:FN0059|3end_NifU_protein_695619..695769_POSITIVE 194 107 67 64 18 NC_003454:FN0662|3end_Formiminoglutamase_1319188..1319338_POSITIVE 189 45 1 35 3 NC_003454:FN0972|3end_Cobyrinic_acid_a,c-diamide_synthase_1624273..1624423_NEGATIVE 185 44 10 72 32 NC_003454:FN1347|3end_Hypothetical_cytosolic_protein_1999644..1999794_NEGATIVE 181 53 11 61 14 NC_003454:FN0198|3end_Transcriptional_regulatory_protein_825823..825973_POSITIVE 178 43 2 119 82 NC_003454:FN0547|3end_recombinase_A_1200868..1201018_POSITIVE 174 112 80 34 4 NC_003454:FN1103|3end_Excinuclease_ABC_subunit_A_1749521..1749671_POSITIVE 171 106 68 63 25 NC_003454:FN0461|3end_Probable_sigma(54)_modulation_protein_1107147..1107297_POSITIVE 170 47 5 136 84 NC_003454:FN1580|3end_2-C-methyl-D-erythritol_4-phosphate_cytidylyltransferase_90224..90374_NEGATIVE 169 92 66 46 20 NC_003454:FN2055|3end_hypothetical_protein_564002..564152_NEGATIVE 168 45 2 84 37 NC_003454:FN0239|3end_hypothetical_protein_863923..864073_POSITIVE 168 107 64 81 34 NC_003454:FN0212|3end_hypothetical_protein_837583..837733_NEGATIVE 167 43 1 87 44 NC_003454:FN1453|3end_hypothetical_protein_2134073..2134223_NEGATIVE 167 36 7 85 52 NC_003454:FN1366|3end_Triosephosphate_isomerase_2016763..2016913_NEGATIVE 165 42 4 118 84 NC_003454:FN1369|3end_Zinc_finger_protein_2018779..2018929_NEGATIVE 165 46 3 53 11 NC_003454:FN0064|3end_Hypothetical_cytosolic_protein_699922..700072_POSITIVE 165 87 46 100 57 NC_003454:FN1503|3end_Nickel_transport_system_permease_protein_nikB_7503..7653_NEGATIVE 162 118 71 144 103 NC_003454:FN0629|3end_PTS_system,_IID_component_1288267..1288417_NEGATIVE 159 46 2 64 21 NC_003454:FN0217|3end_Catabolite_gene_activator_841735..841885_POSITIVE