Origin IGS: ttttcttttataagattagctaaatttatagataattcttatattttctcctcaatataatatatttaagttattaaaggtaacctataaccctacttacataaatataactatttaataaa .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tttattaaatagttatatttatgtaagtagggttataggttacctttaataacttaaatatattatattgaggagaaaatataagaattatctataaatttagctaatcttataaaagaaaa Mask Tandem Repeat Region ================================================ ttttcttttataagattagctaaatttatagataattcttatattttctcctcaatataatatatttaagttattaaaggtaacctataaccctacttacataaatataactatttaataaa Find is-nt database================================================ Query_seq: FN0953:FN0954|FN0953:FN0954:hypothetical protein:Hypothetical cytosolic protein:<-<-:1610337..1610458 122 ttttcttttataagattagctaaatttatagataattcttatattttctcctcaatataatatatttaagttattaaaggtaacctataaccctacttacataaatataactatttaataaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: FN0953:FN0954|FN0953:FN0954:hypothetical protein:Hypothetical cytosolic protein:<-<-:1610337..1610458 122 ttttcttttataagattagctaaatttatagataattcttatattttctcctcaatataatatatttaagttattaaaggtaacctataaccctacttacataaatataactatttaataaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: FN0953:FN0954|FN0953:FN0954:hypothetical protein:Hypothetical cytosolic protein:<-<-:1610337..1610458 122 ttttcttttataagattagctaaatttatagataattcttatattttctcctcaatataatatatttaagttattaaaggtaacctataaccctacttacataaatataactatttaataaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ttttcttttataagattagctaaatttatagataattcttatattttctcctcaatataatatatttaagttattaaaggtaacctataaccctacttacataaatataactatttaataaa Predict ORF larger than 30AA ================================================ ttttcttttataagattagctaaatttatagataattcttatattttctcctcaatataatatatttaagttattaaaggtaacctataaccctacttacataaatataactatttaataaa 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================================================ ttttcttttataagattagctaaatttatagataattcttatattttctcctcaatataatatatttaagttattaaaggtaacctataaccctacttacataaatataactatttaataaa Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: FN0953:FN0954|FN0953:FN0954:hypothetical protein:Hypothetical cytosolic protein:<-<-:1610337..1610458 122 ttttcttttataagattagctaaatttatagataattcttatattttctcctcaatataatatatttaagttattaaaggtaacctataaccctacttacataaatataactatttaataaa Intra-Species Hit: Count: 1 Min: 1 Max: 122 Len: 122 Subject: NC_003454_FN0953_FN0954|hypothetical protein:Hypothetical cytosolic protein|NEGATIVE:NEGATIVE|[1610337,1610458]|122 HSP 1 e-value: 2.0E-63 bit: 242.0 Len: 122 Query Start:1 Query End:122 Subject Strand: POSITIVE Subject Start: 1 Subject End: 122 ttttcttttataagattagctaaatttatagataattcttatattttctcctcaatataatatatttaagttattaaaggtaacctataaccctacttacataaatataactatttaataaa ttttcttttataagattagctaaatttatagataattcttatattttctcctcaatataatatatttaagttattaaaggtaacctataaccctacttacataaatataactatttaataaa Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUUCUUUUAUAAGAUUAGCUAAAUUUAUAGAUAAUUCUUAUAUUUUCUCCUCAAUAUAAUAUAUUUAAGUUAUUAAAGGUAACCUAUAACCCUACUUACAUAAAUAUAACUAUUUAAUAAA ........((((((((((.(((......))).))).))))))).................((((((((.((.......(((........)))......)).))))))))............. (-12.82) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUAUUAAAUAGUUAUAUUUAUGUAAGUAGGGUUAUAGGUUACCUUUAAUAACUUAAAUAUAUUAUAUUGAGGAGAAAAUAUAAGAAUUAUCUAUAAAUUUAGCUAAUCUUAUAAAAGAAAA (((....((((..((((((((.((.(..(((((........)))))...).)).))))))))...))))....)))...(((((((.(((.(((......))).))))))))))........ (-18.10) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 694 100 51 191 142 NC_003454:FN0953|5end_hypothetical_protein_1610246..1610476_NEGATIVE 227 58 18 110 65 NC_003454:FN1971|5end_Hemin_receptor_471106..471336_NEGATIVE 224 78 33 123 82 NC_003454:FN1995|5end_hypothetical_protein_498245..498475_POSITIVE 214 46 4 205 158 NC_003454:FN1406|5end_histidine_ammonia-lyase_2064877..2065107_POSITIVE 204 115 79 85 54 NC_003454:FN0951|5end_Precorrin-3B_C17-methyltransferase_1608496..1608726_NEGATIVE 201 76 33 124 84 NC_003454:FN1919|5end_Methyltransferase_415882..416112_NEGATIVE 197 62 39 132 109 NC_003454:FN0579|5end_Hypothetical_cytosolic_protein_1229803..1230033_POSITIVE 196 41 3 103 59 NC_003454:FN1623|5end_Ribosome_Recycling_Factor_(RRF)_130394..130624_POSITIVE 195 73 36 123 85 NC_003454:FN1979|5end_SSU_ribosomal_protein_S15P_481736..481966_POSITIVE 194 58 16 105 51 NC_003454:FN1810|5end_Manganese_transport_system_membrane_protein_mntB_291953..292183_NEGATIVE 194 56 20 86 43 NC_003454:FN1701|5end_ABC_transporter_ATP-binding_protein_197138..197368_NEGATIVE 193 49 6 226 184 NC_003454:FN1125|5end_LemA_protein_1769811..1770041_NEGATIVE 192 48 2 214 170 NC_003454:FN0459|5end_Hypothetical_exported_24-amino_acid_repeat_protein_1104609..1104839_POSITIVE 186 60 29 179 147 NC_003454:FN0239|5end_hypothetical_protein_863655..863885_POSITIVE 184 59 31 222 193 NC_003454:FN1127|5end_Hypothetical_membrane-spanning_protein_1772127..1772357_NEGATIVE 184 102 76 55 30 NC_003454:FN0709|5end_Virulence_factor_mviN_1367339..1367569_POSITIVE 183 109 69 205 157 NC_003454:FN1941|5end_ClpB_protein_441279..441509_POSITIVE 179 83 48 135 102 NC_003454:FN1179|5end_ATP-dependent_RNA_helicase_1841768..1841998_NEGATIVE 172 74 33 128 77 NC_003454:FN0314|5end_Caffeoyl-CoA_O-methyltransferase_951204..951434_POSITIVE 172 104 83 110 86 NC_003454:FN2053|5end_Serine/threonine_sodium_symporter_562415..562645_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 208 57 11 112 65 NC_003454:FN2005|3end_Cobalt_transport_ATP-binding_protein_cbiO_505976..506126_POSITIVE 204 115 79 92 61 NC_003454:FN0952|3end_cobalamin_biosynthesis_protein_CbiG_1608489..1608639_NEGATIVE 201 76 33 127 87 NC_003454:FN1920|3end_tRNA_(5-methylaminomethyl-2-thiouridylate)_-methyltransferase_415879..416029_NEGATIVE 197 62 39 114 91 NC_003454:FN0578|3end_ATP-dependent_DNA_helicase_recQ_1229865..1230015_POSITIVE 196 41 3 68 24 NC_003454:FN1622|3end_Uridylate_kinase_130439..130589_POSITIVE 194 56 20 60 17 NC_003454:FN1702|3end_undecaprenyl_pyrophosphate_phosphatase_197164..197314_NEGATIVE 184 102 76 61 36 NC_003454:FN0708|3end_Hypothetical_cytosolic_protein_1367425..1367575_POSITIVE 179 83 48 46 13 NC_003454:FN1180|3end_hypothetical_protein_1841857..1842007_NEGATIVE 178 93 67 56 31 NC_003454:FN1532|3end_murein_hydrolase_exporter_44936..45086_NEGATIVE 172 74 33 134 83 NC_003454:FN0313|3end_16S_rRNA_m(5)C_967_methyltransferase_951290..951440_POSITIVE 169 53 11 83 32 NC_003454:FN0464|3end_hypothetical_protein_1110087..1110237_POSITIVE 165 88 43 111 66 NC_003454:FN0409|3end_Acetyl-coenzyme_A_carboxylase_carboxyl_transferase_subunit_alpha_1047298..1047448_POSITIVE 165 85 44 89 55 NC_003454:FN0045|3end_Shikimate_5-dehydrogenase_683841..683991_POSITIVE 165 99 60 44 1 NC_003454:FN1619|3end_Hypothetical_cytosolic_protein_127276..127426_NEGATIVE 164 72 39 74 44 NC_003454:FN1386|3end_SWF/SNF_family_helicase_2040188..2040338_NEGATIVE 164 71 32 124 93 NC_003454:FN0419|3end_aspartate_carbamoyltransferase_catalytic_subunit_1060707..1060857_POSITIVE 163 56 29 28 1 NC_003454:FN1937|3end_hypothetical_protein_437705..437855_NEGATIVE 161 72 32 53 3 NC_003454:FN1420|3end_NA+/H+_antiporter_NHAC_2083316..2083466_POSITIVE 161 79 44 146 104 NC_003454:FN1232|3end_Transcriptional_regulator,_MarR_family_1889000..1889150_NEGATIVE 161 51 13 52 16 NC_003454:FN0084|3end_Acetaldehyde_dehydrogenase_[acetylating]_723094..723244_POSITIVE