Origin IGS: agtttctctctttaaataatttttatatttctttatattctcatctgttgctttattggttcatatcttcctccaatatctttttatataaccatactttaaatagtataataaatcaaatcacaattatattgatactgtaaatatatatttttaacagatgaagaattagagatcttatgaaataatttatacaaagaccttaaa .........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 tttaaggtctttgtataaattatttcataagatctctaattcttcatctgttaaaaatatatatttacagtatcaatataattgtgatttgatttattatactatttaaagtatggttatataaaaagatattggaggaagatatgaaccaataaagcaacagatgagaatataaagaaatataaaaattatttaaagagagaaact Mask Tandem Repeat Region ================================================ agtttctctctttaaataatttttatatttctttatattctcatctgttgctttattggttcatatcttcctccaatatctttttatataaccatactttaaatagtataataaatcaaatcacaattatattgatactgtaaatatatatttttaacagatgaagaattagagatcttatgaaataatttatacaaagaccttaaa Find is-nt database================================================ Query_seq: FN0401:FN0402|FN0401:FN0402:hypothetical protein:Integrase/recombinase:<-->:1040241..1040447 207 agtttctctctttaaataatttttatatttctttatattctcatctgttgctttattggttcatatcttcctccaatatctttttatataaccatactttaaatagtataataaatcaaatcacaattatattgatactgtaaatatatatttttaacagatgaagaattagagatcttatgaaataatttatacaaagaccttaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: FN0401:FN0402|FN0401:FN0402:hypothetical protein:Integrase/recombinase:<-->:1040241..1040447 207 agtttctctctttaaataatttttatatttctttatattctcatctgttgctttattggttcatatcttcctccaatatctttttatataaccatactttaaatagtataataaatcaaatcacaattatattgatactgtaaatatatatttttaacagatgaagaattagagatcttatgaaataatttatacaaagaccttaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: FN0401:FN0402|FN0401:FN0402:hypothetical protein:Integrase/recombinase:<-->:1040241..1040447 207 agtttctctctttaaataatttttatatttctttatattctcatctgttgctttattggttcatatcttcctccaatatctttttatataaccatactttaaatagtataataaatcaaatcacaattatattgatactgtaaatatatatttttaacagatgaagaattagagatcttatgaaataatttatacaaagaccttaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 agtttctctctttaaataatttttatatttctttatattctcatctgttgctttattggttcatatcttcctccaatatctttttatataaccatactttaaatagtataataaatcaaatcacaattatattgatactgtaaatatatatttttaacagatgaagaattagagatcttatgaaataatttatacaaagaccttaaa Predict ORF larger than 30AA ================================================ Protein_Len: 38 Strand: + Start: 27 End: 140 .......................... M S L Y S H L L L Y W F I S S S N I F L Y N H T L N S I I N Q I T I I L I L ................................................................... Protein_Len: 32 Strand: - Start: 102 End: 197 ..................................................................................................... I T Y Y I L D C N Y Q Y Q L Y I N K V S S S N S I K H F L K Y M .......... agtttctctctttaaataatttttatatttctttatattctcatctgttgctttattggttcatatcttcctccaatatctttttatataaccatactttaaatagtataataaatcaaatcacaattatattgatactgtaaatatatatttttaacagatgaagaattagagatcttatgaaataatttatacaaagaccttaaa 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: 82 Start: 10 End: 39 .........CTTTAAATAATTTTTATATTTCTTTATATT........................................................................................................................................................................ PromScan Matrix: RpoD-17 Strand: - Score: 81 Start: 91 End: 120 ..........................................................................................TTTGATTTATTATACTATTTAAAGTATGGT....................................................................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ agtttctctctttaaataatttttatatttctttatattctcatctgttgctttattggttcatatcttcctccaatatctttttatataaccatactttaaatagtataataaatcaaatcacaattatattgatactgtaaatatatatttttaacagatgaagaattagagatcttatgaaataatttatacaaagaccttaaa Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: FN0401:FN0402|FN0401:FN0402:hypothetical protein:Integrase/recombinase:<-->:1040241..1040447 207 agtttctctctttaaataatttttatatttctttatattctcatctgttgctttattggttcatatcttcctccaatatctttttatataaccatactttaaatagtataataaatcaaatcacaattatattgatactgtaaatatatatttttaacagatgaagaattagagatcttatgaaataatttatacaaagaccttaaa Intra-Species Hit: Count: 1 Min: 1 Max: 207 Len: 207 Subject: NC_003454_FN0401_FN0402|hypothetical protein:Integrase/recombinase|NEGATIVE:POSITIVE|[1040241 ,1040447]|207 HSP 1 e-value: 1.0E-114 bit: 410.0 Len: 207 Query Start:1 Query End:207 Subject Strand: POSITIVE Subject Start: 1 Subject End: 207 agtttctctctttaaataatttttatatttctttatattctcatctgttgctttattggttcatatcttcctccaatatctttttatataaccatactttaaatagtataataaatcaaatcacaattatattgatactgtaaatatatatttttaacagatgaagaattagagatcttatgaaataatttatacaaagaccttaaa agtttctctctttaaataatttttatatttctttatattctcatctgttgctttattggttcatatcttcctccaatatctttttatataaccatactttaaatagtataataaatcaaatcacaattatattgatactgtaaatatatatttttaacagatgaagaattagagatcttatgaaataatttatacaaagaccttaaa Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGUUUCUCUCUUUAAAUAAUUUUUAUAUUUCUUUAUAUUCUCAUCUGUUGCUUUAUUGGUUCAUAUCUUCCUCCAAUAUCUUUUUAUAUAACCAUACUUUAAAUAGUAUAAUAAAUCAAAUCACAAUUAUAUUGAUACUGUAAAUAUAUAUUUUUAACAGAUGAAGAAUUAGAGAUCUUAUGAAAUAAUUUAUACAAAGACCUUAAA ........(((((..((((.(((((((..((((((.((((((((((((((...((((((.............))))))......((((((...(((((......))))).....(((((............)))))........))))))....))))))))).)))))))))))...)))))))....))))..)))))....... (-36.52) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUAAGGUCUUUGUAUAAAUUAUUUCAUAAGAUCUCUAAUUCUUCAUCUGUUAAAAAUAUAUAUUUACAGUAUCAAUAUAAUUGUGAUUUGAUUUAUUAUACUAUUUAAAGUAUGGUUAUAUAAAAAGAUAUUGGAGGAAGAUAUGAACCAAUAAAGCAACAGAUGAGAAUAUAAAGAAAUAUAAAAAUUAUUUAAAGAGAGAAACU .......(((((.(.(((((.((((.......(((.(((((((.((((((((...............(((((((.(((((((..((.(((((.............))))).))..))))))).....)))))))..((..........))........))))))))))))).)).))).......)))).))))).).))))).... (-34.86) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 786 80 31 171 122 NC_003454:FN0401|5end_hypothetical_protein_1040150..1040380_NEGATIVE 313 74 38 105 58 NC_003454:FN1237|5end_Choline_kinase_1895057..1895287_NEGATIVE 289 89 44 108 61 NC_003454:FN2126|5end_DNA_gyrase_subunit_B_638225..638455_NEGATIVE 247 76 43 154 120 NC_003454:FN0551|5end_Bacterial_regulatory_proteins,_crp_family_1203276..1203506_POSITIVE 245 89 41 225 173 NC_003454:FN1051|5end_hypothetical_protein_1699781..1700011_POSITIVE 244 69 27 65 24 NC_003454:FN1341|5end_Bacterial_Peptide_Chain_Release_Factor_2_(RF-2)_1995896..1996126_NEGATIVE 243 79 44 94 51 NC_003454:FN0388|5end_Tetracenomycin_polyketide_synthesis_O-methyltransferase_tcmP_1027409..1027639_NEGATIVE 241 81 46 230 191 NC_003454:FN0189|5end_Two-component_response_regulator_yesN_813203..813433_POSITIVE 238 60 16 174 126 NC_003454:FN0040|5end_asparaginyl-tRNA_synthetase_680609..680839_NEGATIVE 236 69 21 72 25 NC_003454:FN1091|5end_Sigma_factor_sigB_regulation_protein_rsbU_1735915..1736145_POSITIVE 235 68 37 143 109 NC_003454:FN0290|5end_Hemolysin_918997..919227_NEGATIVE 235 83 46 136 99 NC_003454:FN0198|5end_Transcriptional_regulatory_protein_823761..823991_POSITIVE 235 78 31 68 8 NC_003454:FN1723|5end_glucose-inhibited_division_protein_A_222645..222875_NEGATIVE 233 48 4 149 98 NC_003454:FN1017|5end_hypothetical_protein_1671266..1671496_POSITIVE 231 90 42 55 1 NC_003454:FN1268|5end_Methionyl-tRNA_synthetase_1925593..1925823_NEGATIVE 231 74 33 102 66 NC_003454:FN0209|5end_Hypothetical_cytosolic_protein_836127..836357_POSITIVE 227 75 31 104 52 NC_003454:FN1117|5end_LSU_ribosomal_protein_L21P_1760242..1760472_POSITIVE 225 74 38 78 33 NC_003454:FN1321|5end_Acetoacetate_metabolism_regulatory_protein_atoC_1977390..1977620_NEGATIVE 225 90 51 116 82 NC_003454:FN0495|5end_Acetyl-CoA_acetyltransferase_1139567..1139797_POSITIVE 225 110 66 133 92 NC_003454:FN0084|5end_Acetaldehyde_dehydrogenase_[acetylating]_721572..721802_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 289 89 44 107 60 NC_003454:FN2127|3end_hypothetical_protein_638226..638376_NEGATIVE 231 74 33 91 55 NC_003454:FN0208|3end_(R)-2-hydroxyglutaryl-CoA_dehydratase_beta-subunit_836196..836346_POSITIVE 229 79 31 122 71 NC_003454:FN2076|3end_MunI_regulatory_protein_587536..587686_NEGATIVE 228 87 44 129 87 NC_003454:FN0194|3end_Dipeptide_transport_system_permease_protein_dppC_820743..820893_POSITIVE 225 90 51 57 23 NC_003454:FN0494|3end_Short_chain_dehydrogenase_1139588..1139738_POSITIVE 224 66 21 130 85 NC_003454:FN0535|3end_hypothetical_protein_1190009..1190159_POSITIVE 220 74 31 91 46 NC_003454:FN0297|3end_ATPase_associated_with_chromosome_architecture/replication_931201..931351_POSITIVE 220 60 18 136 86 NC_003454:FN2077|3end_NA+/H+_antiporter_NHAC_589410..589560_POSITIVE 216 89 41 90 42 NC_003454:FN0836|3end_hypothetical_protein_1499178..1499328_POSITIVE 216 87 46 122 85 NC_003454:FN1995|3end_hypothetical_protein_499038..499188_POSITIVE 215 62 22 150 106 NC_003454:FN2093|3end_General_secretion_pathway_protein_G_603096..603246_NEGATIVE 213 42 1 128 80 NC_003454:FN0782|3end_Methyltransferase_1438281..1438431_NEGATIVE 212 46 19 103 77 NC_003454:FN1203|3end_GTP-binding_protein_1862311..1862461_NEGATIVE 211 84 44 72 25 NC_003454:FN1029|3end_Zinc_protease_1682385..1682535_NEGATIVE 211 49 1 124 82 NC_003454:FN1949|3end_Xaa-Pro_dipeptidase_453534..453684_NEGATIVE 209 76 44 131 104 NC_003454:FN1092|3end_hypothetical_protein_1738261..1738411_POSITIVE 209 46 4 150 101 NC_003454:FN1016|3end_Lipid_A_biosynthesis_lauroyl_acyltransferase_1671349..1671499_POSITIVE 209 85 42 104 53 NC_003454:FN1830|3end_DNA_polymerase_III_subunits_gamma_and_tau_318571..318721_NEGATIVE 208 74 40 86 52 NC_003454:FN0309|3end_Iron(III)-transport_system_permease_protein_sfuB_945861..946011_POSITIVE 208 93 51 150 102 NC_003454:FN1893|3end_Fusobacterium_outer_membrane_protein_family_374412..374562_NEGATIVE