Origin IGS: aagaagtgctaatacaaataaatacttatttttaaacattacaattatttaaagaacaatatacgctctttatcctcccttttctaattttttttacgaacctttataatatagcatacaaatatttaactcgtcaaattatatttttaaaatatattttgtcatactttataatgacatatcaaatcgttgttttatttattaataaaagcttaaaattttaaaataagttgaaatattaaacataaaatgatatattctttatatactgtaaaaaattaaattattaggaggaatttt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aaaattcctcctaataatttaattttttacagtatataaagaatatatcattttatgtttaatatttcaacttattttaaaattttaagcttttattaataaataaaacaacgatttgatatgtcattataaagtatgacaaaatatattttaaaaatataatttgacgagttaaatatttgtatgctatattataaaggttcgtaaaaaaaattagaaaagggaggataaagagcgtatattgttctttaaataattgtaatgtttaaaaataagtatttatttgtattagcacttctt Mask Tandem Repeat Region ================================================ aagaagtgctaatacaaataaatacttatttttaaacattacaattatttaaagaacaatatacgctctttatcctcccttttctaattttttttacgaacctttataatatagcatacaaatatttaactcgtcaaattatatttttaaaatatattttgtcatactttataatgacatatcaaatcgttgttttatttattaataaaagcttaaaattttaaaataagttgaaatattaaacataaaatgatatattctttatatactgtaaaaaattaaattattaggaggaatttt Find is-nt database================================================ Query_seq: FN1905:FN1906|FN1905:FN1906:168 kDa surface-layer protein precursor:Cytosol aminopeptidase:<-->:398207..398506 300 aagaagtgctaatacaaataaatacttatttttaaacattacaattatttaaagaacaatatacgctctttatcctcccttttctaattttttttacgaacctttataatatagcatacaaatatttaactcgtcaaattatatttttaaaatatattttgtcatactttataatgacatatcaaatcgttgttttatttattaataaaagcttaaaattttaaaataagttgaaatattaaacataaaatgatatattctttatatactgtaaaaaattaaattattaggaggaatttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: FN1905:FN1906|FN1905:FN1906:168 kDa surface-layer protein precursor:Cytosol aminopeptidase:<-->:398207..398506 300 aagaagtgctaatacaaataaatacttatttttaaacattacaattatttaaagaacaatatacgctctttatcctcccttttctaattttttttacgaacctttataatatagcatacaaatatttaactcgtcaaattatatttttaaaatatattttgtcatactttataatgacatatcaaatcgttgttttatttattaataaaagcttaaaattttaaaataagttgaaatattaaacataaaatgatatattctttatatactgtaaaaaattaaattattaggaggaatttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: FN1905:FN1906|FN1905:FN1906:168 kDa surface-layer protein precursor:Cytosol aminopeptidase:<-->:398207..398506 300 aagaagtgctaatacaaataaatacttatttttaaacattacaattatttaaagaacaatatacgctctttatcctcccttttctaattttttttacgaacctttataatatagcatacaaatatttaactcgtcaaattatatttttaaaatatattttgtcatactttataatgacatatcaaatcgttgttttatttattaataaaagcttaaaattttaaaataagttgaaatattaaacataaaatgatatattctttatatactgtaaaaaattaaattattaggaggaatttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aagaagtgctaatacaaataaatacttatttttaaacattacaattatttaaagaacaatatacgctctttatcctcccttttctaattttttttacgaacctttataatatagcatacaaatatttaactcgtcaaattatatttttaaaatatattttgtcatactttataatgacatatcaaatcgttgttttatttattaataaaagcttaaaattttaaaataagttgaaatattaaacataaaatgatatattctttatatactgtaaaaaattaaattattaggaggaatttt Predict ORF larger than 30AA ================================================ Protein_Len: 50 Strand: + Start: 72 End: 221 ....................................................................... M L P F L I F F T N L Y N I A Y K Y L T R Q I I F L K Y I L S Y F I M T Y Q I V V L F I N K S L K F ............................................................................... aagaagtgctaatacaaataaatacttatttttaaacattacaattatttaaagaacaatatacgctctttatcctcccttttctaattttttttacgaacctttataatatagcatacaaatatttaactcgtcaaattatatttttaaaatatattttgtcatactttataatgacatatcaaatcgttgttttatttattaataaaagcttaaaattttaaaataagttgaaatattaaacataaaatgatatattctttatatactgtaaaaaattaaattattaggaggaatttt 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: 85 Start: 146 End: 175 .................................................................................................................................................TTTAAAATATATTTTGTCATACTTTATAAT............................................................................................................................. PromScan Matrix: RpoD-17 Strand: + Score: 85 Start: 230 End: 259 .....................................................................................................................................................................................................................................GTTGAAATATTAAACATAAAATGATATATT......................................... PromScan Matrix: RpoD-17 Strand: + Score: 83 Start: 81 End: 110 ................................................................................TTTCTAATTTTTTTTACGAACCTTTATAAT.............................................................................................................................................................................................. Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ aagaagtgctaatacaaataaatacttatttttaaacattacaattatttaaagaacaatatacgctctttatcctcccttttctaattttttttacgaacctttataatatagcatacaaatatttaactcgtcaaattatatttttaaaatatattttgtcatactttataatgacatatcaaatcgttgttttatttattaataaaagcttaaaattttaaaataagttgaaatattaaacataaaatgatatattctttatatactgtaaaaaattaaattattaggaggaatttt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: FN1905:FN1906|FN1905:FN1906:168 kDa surface-layer protein precursor:Cytosol aminopeptidase:<-->:398207..398506 300 aagaagtgctaatacaaataaatacttatttttaaacattacaattatttaaagaacaatatacgctctttatcctcccttttctaattttttttacgaacctttataatatagcatacaaatatttaactcgtcaaattatatttttaaaatatattttgtcatactttataatgacatatcaaatcgttgttttatttattaataaaagcttaaaattttaaaataagttgaaatattaaacataaaatgatatattctttatatactgtaaaaaattaaattattaggaggaatttt Intra-Species Hit: Count: 1 Min: 1 Max: 192 Len: 192 Subject: NC_003454_FN1905_FN1906|168 kDa surface-layer protein precursor:Cytosol aminopeptidase|NEGATIVE:POSITIVE|[398207,398506]|300 HSP 1 e-value: 2.0E-90 bit: 333.0 Len: 192 Query Start:1 Query End:192 Subject Strand: POSITIVE Subject Start: 1 Subject End: 192 aagaagtgctaatacaaataaatacttatttttaaacattacaattatttaaagaacaatatacgctctttatcctcccttttctaannnnnnnnacgaacctttataatatagcatacaaatatttaactcgtcaaattatatttttaaaatatattttgtcatactttataatgacatatcaaatcgttg............................................................................................................ aagaagtgctaatacaaataaatacttatttttaaacattacaattatttaaagaacaatatacgctctttatcctcccttttctaattttttttacgaacctttataatatagcatacaaatatttaactcgtcaaattatatttttaaaatatattttgtcatactttataatgacatatcaaatcgttg............................................................................................................ Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAGAAGUGCUAAUACAAAUAAAUACUUAUUUUUAAACAUUACAAUUAUUUAAAGAACAAUAUACGCUCUUUAUCCUCCCUUUUCUAAUUUUUUUUACGAACCUUUAUAAUAUAGCAUACAAAUAUUUAACUCGUCAAAUUAUAUUUUUAAAAUAUAUUUUGUCAUACUUUAUAAUGACAUAUCAAAUCGUUG .....((((((....((((((....))))))..................((((((.(.......).)))))).......................................)))))).........((((.........((((((.....))))))...((((((........)))))).........)))) (-15.60) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CAACGAUUUGAUAUGUCAUUAUAAAGUAUGACAAAAUAUAUUUUAAAAAUAUAAUUUGACGAGUUAAAUAUUUGUAUGCUAUAUUAUAAAGGUUCGUAAAAAAAAUUAGAAAAGGGAGGAUAAAGAGCGUAUAUUGUUCUUUAAAUAAUUGUAAUGUUUAAAAAUAAGUAUUUAUUUGUAUUAGCACUUCUU ....((..((...((((((........))))))...((((((.....)))))).....((((((.((((((((((.....(((((((((...(((.............))).........(((((((((.....))))))))).....)))))))))......)))))))))))))))).....))..)).. (-30.72) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 738 110 61 201 152 NC_003454:FN1905|5end_168_kDa_surface-layer_protein_precursor_398116..398346_NEGATIVE 257 118 75 140 100 NC_003454:FN0602|5end_hypothetical_protein_1256649..1256879_POSITIVE 226 81 47 73 36 NC_003454:FN1335|5end_Protein_translocase_subunit_YajC_1989011..1989241_NEGATIVE 225 110 61 227 179 NC_003454:FN1279|5end_Zinc_metallohydrolase,_glyoxalase_II_family_1938270..1938500_NEGATIVE 222 111 71 126 91 NC_003454:FN1829|5end_hypothetical_protein_318556..318786_NEGATIVE 218 116 71 181 132 NC_003454:FN1436|5end_Export_ABC_transporter_2105239..2105469_POSITIVE 214 106 64 136 89 NC_003454:FN0606|5end_Translation_initiation_inhibitor_1261014..1261244_POSITIVE 210 100 66 121 86 NC_003454:FN0868|5end_ATPase_of_the_PP_superfamily_1528050..1528280_NEGATIVE 210 108 69 86 47 NC_003454:FN0197|5end_Methyltransferase_822664..822894_POSITIVE 210 93 64 121 89 NC_003454:FN0070|5end_Glycyl-tRNA_synthetase_beta_chain_708902..709132_POSITIVE 203 84 62 178 158 NC_003454:FN1095|5end_hypothetical_protein_1740232..1740462_POSITIVE 202 90 43 76 29 NC_003454:FN1431|5end_Branched-chain_amino_acid_transport_system_permease_protein_livH_2100252..2100482_NEGATIVE 202 78 55 108 82 NC_003454:FN0512|5end_Flavoprotein_1162597..1162827_NEGATIVE 201 110 74 39 3 NC_003454:FN0254|5end_Fusobacterium_outer_membrane_protein_family_876277..876507_POSITIVE 201 106 61 90 52 NC_003454:FN0108|5end_Microcin_C7_self-immunity_protein_mccF_743219..743449_POSITIVE 198 108 67 207 169 NC_003454:FN0419|5end_aspartate_carbamoyltransferase_catalytic_subunit_1059713..1059943_POSITIVE 194 118 74 145 101 NC_003454:FN0358|5end_ATP_synthase_subunit_B_989674..989904_NEGATIVE 192 107 66 67 26 NC_003454:FN1495|5end_hypothetical_protein_2174410..2174640_NEGATIVE 192 107 66 91 50 NC_003454:FN1494|5end_Rod_shape-determining_protein_mreC_2174386..2174616_NEGATIVE 192 120 76 138 97 NC_003454:FN1364|5end_LSU_ribosomal_protein_L32P_2015561..2015791_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 222 111 71 111 76 NC_003454:FN1830|3end_DNA_polymerase_III_subunits_gamma_and_tau_318571..318721_NEGATIVE 214 106 64 139 92 NC_003454:FN0605|3end_aspartate_aminotransferase_1261097..1261247_POSITIVE 210 100 66 63 28 NC_003454:FN0869|3end_Hydrolase_(HAD_superfamily)_1528108..1528258_NEGATIVE 210 108 69 89 50 NC_003454:FN0196|3end_Transcriptional_regulator,_FUR_family_822747..822897_POSITIVE 210 81 59 92 69 NC_003454:FN2059|3end_Outer_membrane_protein_572877..573027_NEGATIVE 210 81 59 92 69 NC_003454:FN2048|3end_Outer_membrane_protein_558801..558951_NEGATIVE 198 108 67 145 107 NC_003454:FN0418|3end_pyrimidine_regulatory_protein_PyrR_1059731..1059881_POSITIVE 192 107 66 66 25 NC_003454:FN1495|3end_hypothetical_protein_-89..61_NEGATIVE 192 120 76 54 13 NC_003454:FN1365|3end_GTP-binding_protein_2015645..2015795_NEGATIVE 192 92 59 109 73 NC_003454:FN0755|3end_Glutamyl-tRNA(Gln)_amidotransferase_subunit_C_1414663..1414813_NEGATIVE 191 97 56 125 69 NC_003454:FN0583|3end_hypothetical_protein_1239518..1239668_POSITIVE 190 99 70 106 78 NC_003454:FN1034|3end_Transcriptional_regulator,_TetR_family_1688345..1688495_POSITIVE 189 94 70 126 101 NC_003454:FN0858|3end_4-alpha-glucanotransferase_1518987..1519137_NEGATIVE 189 120 74 72 33 NC_003454:FN0169|3end_Coproporphyrinogen_III_oxidase_795228..795378_POSITIVE 188 106 65 120 81 NC_003454:FN0370|3end_Signal_peptidase_I_998972..999122_NEGATIVE 183 117 73 119 77 NC_003454:FN0493|3end_hypothetical_protein_1137623..1137773_NEGATIVE 182 96 57 128 86 NC_003454:FN0802|3end_Amino_acid_transport_system_permease_protein_1461426..1461576_NEGATIVE 181 108 68 105 58 NC_003454:FN1481|3end_Queuine_tRNA-ribosyltransferase_2162679..2162829_NEGATIVE 180 116 71 139 89 NC_003454:FN1993|3end_SUA5_protein_497650..497800_POSITIVE 177 70 21 88 29 NC_003454:FN0242|3end_Trk_system_potassium_uptake_protein_trkA_866666..866816_POSITIVE