Origin IGS: ttttatagaaaaaataaataacttataaagagaagacagaaagaagttccttatggaagtaataaaaattagaaagagcaataaatgattattttaagaatcaatttagtaagagtgaaaaacccataggaggattatt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aataatcctcctatgggtttttcactcttactaaattgattcttaaaataatcatttattgctctttctaatttttattacttccataaggaacttctttctgtcttctctttataagttatttattttttctataaaa Mask Tandem Repeat Region ================================================ ttttatagaaaaaataaataacttataaagagaagacagaaagaagttccttatggaagtaataaaaattagaaagagcaataaatgattattttaagaatcaatttagtaagagtgaaaaacccataggaggattatt Find is-nt database================================================ Query_seq: FN0142:FN0143|FN0142:FN0143:hypothetical protein:hypothetical protein:->->:773898..774036 139 ttttatagaaaaaataaataacttataaagagaagacagaaagaagttccttatggaagtaataaaaattagaaagagcaataaatgattattttaagaatcaatttagtaagagtgaaaaacccataggaggattatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: FN0142:FN0143|FN0142:FN0143:hypothetical protein:hypothetical protein:->->:773898..774036 139 ttttatagaaaaaataaataacttataaagagaagacagaaagaagttccttatggaagtaataaaaattagaaagagcaataaatgattattttaagaatcaatttagtaagagtgaaaaacccataggaggattatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: FN0142:FN0143|FN0142:FN0143:hypothetical protein:hypothetical protein:->->:773898..774036 139 ttttatagaaaaaataaataacttataaagagaagacagaaagaagttccttatggaagtaataaaaattagaaagagcaataaatgattattttaagaatcaatttagtaagagtgaaaaacccataggaggattatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ttttatagaaaaaataaataacttataaagagaagacagaaagaagttccttatggaagtaataaaaattagaaagagcaataaatgattattttaagaatcaatttagtaagagtgaaaaacccataggaggattatt Predict ORF larger than 30AA ================================================ ttttatagaaaaaataaataacttataaagagaagacagaaagaagttccttatggaagtaataaaaattagaaagagcaataaatgattattttaagaatcaatttagtaagagtgaaaaacccataggaggattatt 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: 84 Start: 91 End: 120 ..........................................................................................TTTCACTCTTACTAAATTGATTCTTAAAAT................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ ttttatagaaaaaataaataacttataaagagaagacagaaagaagttccttatggaagtaataaaaattagaaagagcaataaatgattattttaagaatcaatttagtaagagtgaaaaacccataggaggattatt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: FN0142:FN0143|FN0142:FN0143:hypothetical protein:hypothetical protein:->->:773898..774036 139 ttttatagaaaaaataaataacttataaagagaagacagaaagaagttccttatggaagtaataaaaattagaaagagcaataaatgattattttaagaatcaatttagtaagagtgaaaaacccataggaggattatt Intra-Species Hit: Count: 1 Min: 1 Max: 139 Len: 139 Subject: NC_003454_FN0142_FN0143|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[773898,774036]|139 HSP 1 e-value: 2.0E-73 bit: 276.0 Len: 139 Query Start:1 Query End:139 Subject Strand: POSITIVE Subject Start: 1 Subject End: 139 ttttatagaaaaaataaataacttataaagagaagacagaaagaagttccttatggaagtaataaaaattagaaagagcaataaatgattattttaagaatcaatttagtaagagtgaaaaacccataggaggattatt ttttatagaaaaaataaataacttataaagagaagacagaaagaagttccttatggaagtaataaaaattagaaagagcaataaatgattattttaagaatcaatttagtaagagtgaaaaacccataggaggattatt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUUAUAGAAAAAAUAAAUAACUUAUAAAGAGAAGACAGAAAGAAGUUCCUUAUGGAAGUAAUAAAAAUUAGAAAGAGCAAUAAAUGAUUAUUUUAAGAAUCAAUUUAGUAAGAGUGAAAAACCCAUAGGAGGAUUAUU ((((((((..............))))))))..............((((((((((((...((((....))))..........(((((((((........)))).)))))...............))))))).)))))... (-13.94) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAUAAUCCUCCUAUGGGUUUUUCACUCUUACUAAAUUGAUUCUUAAAAUAAUCAUUUAUUGCUCUUUCUAAUUUUUAUUACUUCCAUAAGGAACUUCUUUCUGUCUUCUCUUUAUAAGUUAUUUAUUUUUUCUAUAAAA .....((((..((((((..............(((((.((((........)))))))))..........((((....))))..))))))))))............................................... ( -9.70) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 214 129 86 227 193 NC_003454:FN1744|5end_Transporter_242920..243150_NEGATIVE 192 105 65 40 2 NC_003454:FN1357|5end_Transposase_2008189..2008419_POSITIVE 192 65 38 158 125 NC_003454:FN0770|5end_Hemin_transport_system_ATP-binding_protein_hmuV_1426672..1426902_POSITIVE 192 105 65 40 2 NC_003454:FN0509|5end_Transposase_1160059..1160289_NEGATIVE 192 105 65 40 2 NC_003454:FN1883|5end_Transposase_368863..369093_POSITIVE 185 116 73 145 107 NC_003454:FN0051|5end_hypothetical_protein_688929..689159_NEGATIVE 179 63 27 76 30 NC_003454:FN1668|5end_Cholinephosphate_cytidylyltransferase_165563..165793_NEGATIVE 175 49 7 150 111 NC_003454:FN1220|5end_Cysteine_synthase_1879262..1879492_POSITIVE 173 110 61 207 152 NC_003454:FN0527|5end_Alanyl-tRNA_synthetase_1184098..1184328_NEGATIVE 173 128 82 220 166 NC_003454:FN0187|5end_Thiol:disulfide_interchange_protein_tlpA_811590..811820_POSITIVE 173 80 33 133 85 NC_003454:FN1882|5end_hypothetical_protein_368560..368790_POSITIVE 170 113 77 219 182 NC_003454:FN1431|5end_Branched-chain_amino_acid_transport_system_permease_protein_livH_2100252..2100482_NEGATIVE 169 78 37 174 133 NC_003454:FN1263|5end_Cobalt_chelatase_1920576..1920806_NEGATIVE 167 70 23 195 157 NC_003454:FN1133|5end_N-acetylglucosamine-6-phosphate_deacetylase_1781429..1781659_NEGATIVE 167 89 42 59 16 NC_003454:FN0371|5end_hypothetical_protein_999993..1000223_POSITIVE 166 56 15 142 95 NC_003454:FN0107|5end_Sodium/proline_symporter_741712..741942_POSITIVE 164 129 90 214 175 NC_003454:FN0034|5end_hypothetical_protein_676089..676319_NEGATIVE 163 60 32 219 188 NC_003454:FN1331|5end_Methyltransferase_1985979..1986209_NEGATIVE 159 80 40 224 191 NC_003454:FN1678|5end_hypothetical_protein_174287..174517_POSITIVE 158 67 32 65 27 NC_003454:FN0738|5end_Hypothetical_exported_24-amino_acid_repeat_protein_1395846..1396076_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 200 80 39 62 12 NC_003454:FN1175|3end_hypothetical_protein_1836557..1836707_NEGATIVE 179 63 27 79 33 NC_003454:FN1669|3end_Choline_transport_protein_165560..165710_NEGATIVE 173 128 82 136 82 NC_003454:FN0186|3end_Cytochrome_c-type_biogenesis_protein_ccdA_811586..811736_POSITIVE 170 113 77 42 5 NC_003454:FN1432|3end_Leucine-,_isoleucine-,_valine-,_threonine-,_and_alanine-binding_protein_2100429..2100579_NEGATIVE 169 65 25 51 6 NC_003454:FN1449|3end_Fusobacterium_outer_membrane_protein_family_2118612..2118762_NEGATIVE 164 129 90 63 24 NC_003454:FN0035|3end_hypothetical_protein_676240..676390_NEGATIVE 163 60 32 132 101 NC_003454:FN1332|3end_Bacterial_Peptide_Chain_Release_Factor_1_(RF-1)_1986066..1986216_NEGATIVE 162 117 80 122 82 NC_003454:FN1531|3end_Negative_regulator_of_murein_hydrolase_44236..44386_NEGATIVE 161 50 1 141 97 NC_003454:FN0674|3end_Transporter_1330401..1330551_POSITIVE 158 108 66 68 33 NC_003454:FN0146|3end_hypothetical_protein_775330..775480_POSITIVE 156 130 85 97 42 NC_003454:FN0667|3end_Na+_driven_multidrug_efflux_pump_1322344..1322494_NEGATIVE 154 99 70 66 29 NC_003454:FN1903|3end_Coenzyme_A_disulfide_reductase/_disulfide_bond_regulator_domain_390672..390822_NEGATIVE 152 129 110 50 29 NC_003454:FN1335|3end_Protein_translocase_subunit_YajC_1988727..1988877_NEGATIVE 148 120 92 118 89 NC_003454:FN1762|3end_Protein_yaaA_255258..255408_NEGATIVE 146 95 56 97 54 NC_003454:FN1352|3end_ABC_transporter_ATP-binding_protein_2003506..2003656_NEGATIVE 146 62 31 80 45 NC_003454:FN0683|3end_hypothetical_protein_1338514..1338664_NEGATIVE 145 45 2 40 1 NC_003454:FN0792|3end_urocanate_hydratase_1450364..1450514_POSITIVE 145 119 76 79 34 NC_003454:FN0422|3end_carbamoyl-phosphate_synthase_large_subunit_1066283..1066433_POSITIVE 145 118 79 104 59 NC_003454:FN0036|3end_Hypothetical_membrane-spanning_Protein_676977..677127_NEGATIVE 144 129 108 66 45 NC_003454:FN0141|3end_hypothetical_protein_773203..773353_NEGATIVE