Origin IGS: aaaaaaatgaaagatttaacacatgagagcttttgggataaatttataaagaacagtattaggtattaaaggaaaaaatatataaattgactttaacttaaaaaagtattacaatgtaaacaactagataataaaggggtgattat .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 ataatcacccctttattatctagttgtttacattgtaatacttttttaagttaaagtcaatttatatattttttcctttaatacctaatactgttctttataaatttatcccaaaagctctcatgtgttaaatctttcattttttt Mask Tandem Repeat Region ================================================ aaaaaaatgaaagatttaacacatgagagcttttgggataaatttataaagaacagtattaggtattaaaggaaaaaatatataaattgactttaacttaaaaaagtattacaatgtaaacaactagataataaaggggtgattat Find is-nt database================================================ Query_seq: FN1098:FN1099|FN1098:FN1099:hypothetical protein:hypothetical protein:->->:1743959..1744104 146 aaaaaaatgaaagatttaacacatgagagcttttgggataaatttataaagaacagtattaggtattaaaggaaaaaatatataaattgactttaacttaaaaaagtattacaatgtaaacaactagataataaaggggtgattat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: FN1098:FN1099|FN1098:FN1099:hypothetical protein:hypothetical protein:->->:1743959..1744104 146 aaaaaaatgaaagatttaacacatgagagcttttgggataaatttataaagaacagtattaggtattaaaggaaaaaatatataaattgactttaacttaaaaaagtattacaatgtaaacaactagataataaaggggtgattat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: FN1098:FN1099|FN1098:FN1099:hypothetical protein:hypothetical protein:->->:1743959..1744104 146 aaaaaaatgaaagatttaacacatgagagcttttgggataaatttataaagaacagtattaggtattaaaggaaaaaatatataaattgactttaacttaaaaaagtattacaatgtaaacaactagataataaaggggtgattat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aaaaaaatgaaagatttaacacatgagagcttttgggataaatttataaagaacagtattaggtattaaaggaaaaaatatataaattgactttaacttaaaaaagtattacaatgtaaacaactagataataaaggggtgattat Predict ORF larger than 30AA ================================================ aaaaaaatgaaagatttaacacatgagagcttttgggataaatttataaagaacagtattaggtattaaaggaaaaaatatataaattgactttaacttaaaaaagtattacaatgtaaacaactagataataaaggggtgattat 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: 86 Start: 86 End: 115 .....................................................................................ATTGACTTTAACTTAAAAAAGTATTACAAT............................... PromScan Matrix: RpoD-17 Strand: + Score: 83 Start: 15 End: 44 ..............TTTAACACATGAGAGCTTTTGGGATAAATT...................................................................................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ aaaaaaatgaaagatttaacacatgagagcttttgggataaatttataaagaacagtattaggtattaaaggaaaaaatatataaattgactttaacttaaaaaagtattacaatgtaaacaactagataataaaggggtgattat Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: FN1098:FN1099|FN1098:FN1099:hypothetical protein:hypothetical protein:->->:1743959..1744104 146 aaaaaaatgaaagatttaacacatgagagcttttgggataaatttataaagaacagtattaggtattaaaggaaaaaatatataaattgactttaacttaaaaaagtattacaatgtaaacaactagataataaaggggtgattat Intra-Species Hit: Count: 1 Min: 8 Max: 146 Len: 139 Subject: NC_003454_FN1098_FN1099|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[1743959,1744104]|146 HSP 1 e-value: 2.0E-73 bit: 276.0 Len: 139 Query Start:8 Query End:146 Subject Strand: POSITIVE Subject Start: 8 Subject End: 146 .......tgaaagatttaacacatgagagcttttgggataaatttataaagaacagtattaggtattaaaggaaaaaatatataaattgactttaacttaaaaaagtattacaatgtaaacaactagataataaaggggtgattat .......tgaaagatttaacacatgagagcttttgggataaatttataaagaacagtattaggtattaaaggaaaaaatatataaattgactttaacttaaaaaagtattacaatgtaaacaactagataataaaggggtgattat Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAAAGAUUUAACACAUGAGAGCUUUUGGGAUAAAUUUAUAAAGAACAGUAUUAGGUAUUAAAGGAAAAAAUAUAUAAAUUGACUUUAACUUAAAAAAGUAUUACAAUGUAAACAACUAGAUAAUAAAGGGGUGAUUAU ............(((.........(((((......................((((((..(((((..((...........))..)))))))))))....((.((((...))))))..)))))..........)))..... (-10.01) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUAAUCACCCCUUUAUUAUCUAGUUGUUUACAUUGUAAUACUUUUUUAAGUUAAAGUCAAUUUAUAUAUUUUUUCCUUUAAUACCUAAUACUGUUCUUUAUAAAUUUAUCCCAAAAGCUCUCAUGUGUUAAAUCUUUCA .............((((((...((.....))...)))))).........(((((((..((...........))..)))))))...((((((((..((((..............))))....)).))))))......... ( -6.24) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 184 31 13 230 207 NC_003454:FN0927|5end_hypothetical_protein_1582352..1582582_NEGATIVE 180 65 30 184 150 NC_003454:FN1133|5end_N-acetylglucosamine-6-phosphate_deacetylase_1781429..1781659_NEGATIVE 180 61 22 90 48 NC_003454:FN0873|5end_Protease_IV_1534187..1534417_NEGATIVE 175 80 33 204 158 NC_003454:FN1650|5end_Oligopeptide_transport_system_permease_protein_oppC_144834..145064_NEGATIVE 172 56 11 192 135 NC_003454:FN1992|5end_Ribose-phosphate_pyrophosphokinase_495965..496195_POSITIVE 170 60 16 56 16 NC_003454:FN0565|5end_hypothetical_protein_1217464..1217694_NEGATIVE 169 56 12 70 30 NC_003454:FN1635|5end_LSU_ribosomal_protein_L14P_136572..136802_NEGATIVE 159 50 1 213 164 NC_003454:FN0051|5end_hypothetical_protein_688929..689159_NEGATIVE 157 33 1 220 192 NC_003454:FN1740|5end_ATP_synthase_subunit_K_238400..238630_NEGATIVE 150 69 21 178 137 NC_003454:FN1427|5end_Phenazine_biosynthesis_protein_phzF_2095802..2096032_POSITIVE 150 44 5 95 56 NC_003454:FN1709|5end_CDP-diacylglycerol--glycerol-3-phosphate_3-phosphatidyltransferase_205415..205645_POSITIVE 146 57 17 69 34 NC_003454:FN1428|5end_Branched-chain_amino_acid_transport_ATP-binding_protein_livF_2097573..2097803_NEGATIVE 146 31 18 218 204 NC_003454:FN1328|5end_Exodeoxyribonuclease_VII_small_subunit_1983129..1983359_NEGATIVE 146 60 17 41 5 NC_003454:FN1503|5end_Nickel_transport_system_permease_protein_nikB_8441..8671_NEGATIVE 145 33 1 83 53 NC_003454:FN0354|5end_Hypothetical_membrane-spanning_protein_985292..985522_POSITIVE 144 66 27 158 119 NC_003454:FN0590|5end_N-acyl-L-amino_acid_amidohydrolase_1244037..1244267_NEGATIVE 143 51 16 57 22 NC_003454:FN1256|5end_C4-dicarboxylate_transporter_large_subunit_1913206..1913436_NEGATIVE 143 60 15 65 13 NC_003454:FN1217|5end_Holliday_junction_DNA_helicase_ruvB_1877597..1877827_NEGATIVE 142 58 19 213 166 NC_003454:FN0559|5end_Phosphoglucomutase_1211316..1211546_POSITIVE 142 54 13 78 37 NC_003454:FN1685|5end_dTDP-4-dehydrorhamnose_reductase_181013..181243_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 192 41 1 65 32 NC_003454:FN0828|3end_ABC_transporter_permease_protein_1489505..1489655_POSITIVE 169 56 12 41 1 NC_003454:FN1636|3end_SSU_ribosomal_protein_S17P_136601..136751_NEGATIVE 157 67 21 146 106 NC_003454:FN1022|3end_Calcium-transporting_ATPase_1677501..1677651_POSITIVE 157 33 1 59 31 NC_003454:FN1741|3end_ATP_synthase_subunit_I_238561..238711_NEGATIVE 150 44 5 79 40 NC_003454:FN1708|3end_Polyribonucleotide_nucleotidyltransferase_205479..205629_POSITIVE 146 57 17 69 34 NC_003454:FN1429|3end_Branched-chain_amino_acid_transport_ATP-binding_protein_livG_2097573..2097723_NEGATIVE 144 66 27 142 103 NC_003454:FN0591|3end_Putative_efflux_pump_component_MtrF_1244053..1244203_NEGATIVE 143 51 16 42 7 NC_003454:FN1257|3end_C4-dicarboxylate_transporter_small_subunit_1913221..1913371_NEGATIVE 142 54 13 64 23 NC_003454:FN1686|3end_Spore_coat_polysaccharide_biosynthesis_protein_spsF_181027..181177_NEGATIVE 139 58 20 76 46 NC_003454:FN1352|3end_ABC_transporter_ATP-binding_protein_2003506..2003656_NEGATIVE 139 40 16 94 68 NC_003454:FN1944|3end_Sodium-dependent_tryptophan_transporter_448026..448176_POSITIVE 132 33 22 148 137 NC_003454:FN0602|3end_hypothetical_protein_1257439..1257589_POSITIVE 132 56 13 74 20 NC_003454:FN2085|3end_hypothetical_protein_596560..596710_NEGATIVE 131 37 6 125 101 NC_003454:FN0132|3end_Hemolysin_769183..769333_POSITIVE 131 35 2 58 22 NC_003454:FN0100|3end_Flavodoxins/hemoproteins_735119..735269_NEGATIVE 130 129 96 82 52 NC_003454:FN0562|3end_Hypothetical_cytosolic_protein_1215379..1215529_POSITIVE 130 24 1 62 37 NC_003454:FN0272|3end_Acetoacetate:butyrate/acetate_coenzyme_A_transferase_899503..899653_POSITIVE 129 54 14 48 10 NC_003454:FN1004|3end_Transcriptional_regulator,_TetR_family_1660308..1660458_POSITIVE 127 64 29 40 7 NC_003454:FN1504|3end_Nickel-binding_protein_8447..8597_NEGATIVE 125 41 3 151 110 NC_003454:FN0940|3end_hypothetical_protein_1592975..1593125_NEGATIVE