Origin IGS: cataactcttatattaaaatctatatctgctgaataagaaaaaatagaaataaataaaaatgttaagattattagaaattttttcatctttccccctataaatagaat .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 attctatttatagggggaaagatgaaaaaatttctaataatcttaacatttttatttatttctattttttcttattcagcagatatagattttaatataagagttatg Mask Tandem Repeat Region ================================================ cataactcttatattaaaatctatatctgctgaataagaaaaaatagaaataaataaaaatgttaagattattagaaattttttcatctttccccctataaatagaat Find is-nt database================================================ Query_seq: FN0518:FN0519|FN0518:FN0519:Hypothetical exported 24-amino acid repeat protein:Hypothetical exported 24-amino acid repeat protein:<-<-:1170620..1170727 108 cataactcttatattaaaatctatatctgctgaataagaaaaaatagaaataaataaaaatgttaagattattagaaattttttcatctttccccctataaatagaat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: FN0518:FN0519|FN0518:FN0519:Hypothetical exported 24-amino acid repeat protein:Hypothetical exported 24-amino acid repeat protein:<-<-:1170620..1170727 108 cataactcttatattaaaatctatatctgctgaataagaaaaaatagaaataaataaaaatgttaagattattagaaattttttcatctttccccctataaatagaat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: FN0518:FN0519|FN0518:FN0519:Hypothetical exported 24-amino acid repeat protein:Hypothetical exported 24-amino acid repeat protein:<-<-:1170620..1170727 108 cataactcttatattaaaatctatatctgctgaataagaaaaaatagaaataaataaaaatgttaagattattagaaattttttcatctttccccctataaatagaat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 cataactcttatattaaaatctatatctgctgaataagaaaaaatagaaataaataaaaatgttaagattattagaaattttttcatctttccccctataaatagaat Predict ORF larger than 30AA ================================================ Protein_Len: 36 Strand: - Start: 1 End: 108 M V R I N F D I D A S Y S F I S I F L F T L I I L F K K M K G G I F L M cataactcttatattaaaatctatatctgctgaataagaaaaaatagaaataaataaaaatgttaagattattagaaattttttcatctttccccctataaatagaat 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================================================ cataactcttatattaaaatctatatctgctgaataagaaaaaatagaaataaataaaaatgttaagattattagaaattttttcatctttccccctataaatagaat Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: FN0518:FN0519|FN0518:FN0519:Hypothetical exported 24-amino acid repeat protein:Hypothetical exported 24-amino acid repeat protein:<-<-:1170620..1170727 108 cataactcttatattaaaatctatatctgctgaataagaaaaaatagaaataaataaaaatgttaagattattagaaattttttcatctttccccctataaatagaat Intra-Species Hit: Count: 1 Min: 1 Max: 108 Len: 108 Subject: NC_003454_FN0518_FN0519|Hypothetical exported 24-amino acid repeat protein:Hypothetical exported 24-amino acid repeat protein|NEGATIVE:NEGATIVE|[1170620,1170727]|108 HSP 1 e-value: 1.0E-18 bit: 93.7 Len: 47 Query Start:62 Query End:108 Subject Strand: POSITIVE Subject Start: 62 Subject End: 108 .............................................................gttaagattattagaaattttttcatctttccccctataaatagaat .............................................................gttaagattattagaaattttttcatctttccccctataaatagaat HSP 2 e-value: 3.0E-13 bit: 75.8 Len: 38 Query Start:1 Query End:38 Subject Strand: POSITIVE Subject Start: 1 Subject End: 38 cataactcttatattaaaatctatatctgctgaataag...................................................................... cataactcttatattaaaatctatatctgctgaataag...................................................................... Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CAUAACUCUUAUAUUAAAAUCUAUAUCUGCUGAAUAAGAAAAAAUAGAAAUAAAUAAAAAUGUUAAGAUUAUUAGAAAUUUUUUCAUCUUUCCCCCUAUAAAUAGAAU ...................(((((.(((........)))....................(((..((((((......))))))..)))..............))))).. ( -6.70) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUUCUAUUUAUAGGGGGAAAGAUGAAAAAAUUUCUAAUAAUCUUAACAUUUUUAUUUAUUUCUAUUUUUUCUUAUUCAGCAGAUAUAGAUUUUAAUAUAAGAGUUAUG ((((((((((((.(..(((.((.((((((((....(((((...............)))))...)))))))))).)))..)...))))))).........))))).... (-10.66) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 655 50 1 141 92 NC_003454:FN0518|5end_Hypothetical_exported_24-amino_acid_repeat_protein_1170529..1170759_NEGATIVE 287 96 55 104 44 NC_003454:FN1897|5end_ABC_transporter_integral_membrane_protein_384984..385214_NEGATIVE 237 100 53 106 45 NC_003454:FN0834|5end_hypothetical_protein_1496473..1496703_POSITIVE 234 98 65 126 91 NC_003454:FN1251|5end_High-affinity_iron_permease_1908008..1908238_POSITIVE 230 38 2 151 113 NC_003454:FN2078|5end_Transcriptional_regulator,_DeoR_family_590266..590496_NEGATIVE 229 97 53 128 81 NC_003454:FN0459|5end_Hypothetical_exported_24-amino_acid_repeat_protein_1104609..1104839_POSITIVE 222 98 73 102 74 NC_003454:FN0092|5end_NADPH-dependent_butanol_dehydrogenase_727908..728138_POSITIVE 221 95 52 158 109 NC_003454:FN1939|5end_hypothetical_protein_439465..439695_NEGATIVE 221 97 53 101 56 NC_003454:FN1849|5end_Coenzyme_F390_synthetase_337934..338164_POSITIVE 219 96 60 89 56 NC_003454:FN0263|5end_Peptidyl-prolyl_cis-trans_isomerase_890064..890294_POSITIVE 218 97 61 101 68 NC_003454:FN1094|5end_Dolichol-phosphate_mannosyltransferase_1739789..1740019_NEGATIVE 213 95 61 126 86 NC_003454:FN0821|5end_hypothetical_protein_1480859..1481089_POSITIVE 208 99 75 143 118 NC_003454:FN0514|5end_hypothetical_protein_1163431..1163661_POSITIVE 205 98 52 143 104 NC_003454:FN2121|5end_Hypothetical_exported_24-amino_acid_repeat_protein_629728..629958_NEGATIVE 205 100 71 147 117 NC_003454:FN1808|5end_hypothetical_protein_289905..290135_NEGATIVE 201 98 61 103 70 NC_003454:FN1306|5end_Methyltransferase_1961674..1961904_POSITIVE 201 97 77 224 206 NC_003454:FN1261|5end_Two-component_response_regulator_1917871..1918101_NEGATIVE 200 70 21 131 79 NC_003454:FN0293|5end_Hemolysin_activator_protein_precursor_926559..926789_NEGATIVE 199 98 52 104 49 NC_003454:FN2119|5end_Hypothetical_exported_24-amino_acid_repeat_protein_628052..628282_NEGATIVE 196 100 74 49 24 NC_003454:FN2107|5end_galactokinase_618150..618380_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 287 96 55 102 42 NC_003454:FN1898|3end_Sugar_transport_ATP-binding_protein_384986..385136_NEGATIVE 247 99 60 94 61 NC_003454:FN0253|3end_Outer_membrane_protein_875063..875213_POSITIVE 237 100 53 105 44 NC_003454:FN0833|3end_hypothetical_protein_1496552..1496702_POSITIVE 230 38 2 75 37 NC_003454:FN2079|3end_ABC_transporter_ATP-binding_protein_590342..590492_NEGATIVE 229 97 53 84 37 NC_003454:FN0458|3end_hypothetical_protein_1104645..1104795_POSITIVE 222 98 73 82 54 NC_003454:FN0091|3end_Phosphoserine_phosphatase_727968..728118_POSITIVE 221 97 53 70 25 NC_003454:FN1848|3end_Metal_dependent_hydrolase_337983..338133_POSITIVE 206 99 58 94 53 NC_003454:FN0520|3end_hypothetical_protein_1171678..1171828_NEGATIVE 205 98 52 73 34 NC_003454:FN2122|3end_Phenylalanyl-tRNA_synthetase_beta_chain_629798..629948_NEGATIVE 193 98 77 93 69 NC_003454:FN2119|3end_Hypothetical_exported_24-amino_acid_repeat_protein_627036..627186_NEGATIVE 190 97 70 75 44 NC_003454:FN0612|3end_hypothetical_protein_1270832..1270982_POSITIVE 189 99 65 137 98 NC_003454:FN1458|3end_UDP-N-acetylmuramoylalanine--D-glutamate_ligase_2138977..2139127_NEGATIVE 189 32 6 116 88 NC_003454:FN0997|3end_hypothetical_protein_1651384..1651534_NEGATIVE 188 97 55 106 65 NC_003454:FN2087|3end_hypothetical_protein_599039..599189_NEGATIVE 187 100 52 83 39 NC_003454:FN0247|3end_Hypothetical_cytosolic_protein_871578..871728_POSITIVE 184 97 51 91 43 NC_003454:FN0292|3end_Hemolysin_activator_protein_precursor_925011..925161_NEGATIVE 179 94 54 88 44 NC_003454:FN0249|3end_hypothetical_protein_873262..873412_POSITIVE 179 94 54 88 44 NC_003454:FN2063|3end_hypothetical_protein_574660..574810_NEGATIVE 179 94 54 88 44 NC_003454:FN2052|3end_hypothetical_protein_560584..560734_NEGATIVE 178 99 74 88 56 NC_003454:FN1269|3end_Hypothetical_lipoprotein_1925613..1925763_NEGATIVE