Origin IGS: tacagaaaacatagaaaaacttactggacgtcaaaaagctgtactagccacacttatattaggtatagcatacacagtatattgtgttatagaaaaaggttattatattgataaactttcaggtatttttttagcaataggtattataggtggatttattggtggacttaaacctagtaaa .........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 tttactaggtttaagtccaccaataaatccacctataatacctattgctaaaaaaatacctgaaagtttatcaatataataacctttttctataacacaatatactgtgtatgctatacctaatataagtgtggctagtacagctttttgacgtccagtaagtttttctatgttttctgta Mask Tandem Repeat Region ================================================ tacagaaaacatagaaaaacttactggacgtcaaaaagctgtactagccacacttatattaggtatagcatacacagtatattgtgttatagaaaaaggttattatattgataaactttcaggtatttttttagcaataggtattataggtggatttattggtggacttaaacctagtaaa Find is-nt database================================================ Query_seq: FN1409:FN1410|FN1409:FN1410:Transporter:Transporter:->->:2069893..2070073 181 tacagaaaacatagaaaaacttactggacgtcaaaaagctgtactagccacacttatattaggtatagcatacacagtatattgtgttatagaaaaaggttattatattgataaactttcaggtatttttttagcaataggtattataggtggatttattggtggacttaaacctagtaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: FN1409:FN1410|FN1409:FN1410:Transporter:Transporter:->->:2069893..2070073 181 tacagaaaacatagaaaaacttactggacgtcaaaaagctgtactagccacacttatattaggtatagcatacacagtatattgtgttatagaaaaaggttattatattgataaactttcaggtatttttttagcaataggtattataggtggatttattggtggacttaaacctagtaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: FN1409:FN1410|FN1409:FN1410:Transporter:Transporter:->->:2069893..2070073 181 tacagaaaacatagaaaaacttactggacgtcaaaaagctgtactagccacacttatattaggtatagcatacacagtatattgtgttatagaaaaaggttattatattgataaactttcaggtatttttttagcaataggtattataggtggatttattggtggacttaaacctagtaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tacagaaaacatagaaaaacttactggacgtcaaaaagctgtactagccacacttatattaggtatagcatacacagtatattgtgttatagaaaaaggttattatattgataaactttcaggtatttttttagcaataggtattataggtggatttattggtggacttaaacctagtaaa Predict ORF larger than 30AA ================================================ Protein_Len: 57 Strand: + Start: 11 End: 181 .......... M E K L T G R Q K A V L A T L I L G I A Y T V Y C V I E K G Y Y I D K L S G I F L A I G I I G G F I G G L K P S K tacagaaaacatagaaaaacttactggacgtcaaaaagctgtactagccacacttatattaggtatagcatacacagtatattgtgttatagaaaaaggttattatattgataaactttcaggtatttttttagcaataggtattataggtggatttattggtggacttaaacctagtaaa 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================================================ tacagaaaacatagaaaaacttactggacgtcaaaaagctgtactagccacacttatattaggtatagcatacacagtatattgtgttatagaaaaaggttattatattgataaactttcaggtatttttttagcaataggtattataggtggatttattggtggacttaaacctagtaaa Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: FN1409:FN1410|FN1409:FN1410:Transporter:Transporter:->->:2069893..2070073 181 tacagaaaacatagaaaaacttactggacgtcaaaaagctgtactagccacacttatattaggtatagcatacacagtatattgtgttatagaaaaaggttattatattgataaactttcaggtatttttttagcaataggtattataggtggatttattggtggacttaaacctagtaaa Intra-Species Hit: Count: 1 Min: 1 Max: 181 Len: 181 Subject: NC_003454_FN1409_FN1410|Transporter:Transporter|POSITIVE:POSITIVE|[ 2069893,2070073]|181 HSP 1 e-value: 7.0E-86 bit: 317.0 Len: 181 Query Start:1 Query End:181 Subject Strand: POSITIVE Subject Start: 1 Subject End: 181 tacagaaaacatagaaaaacttactggacgtcaaaaagctgtactagccacacttatattaggtatagcatacacagtatattgtgttatagaaaaaggttattatattgataaactttcaggtannnnnnnagcaataggtattataggtggatttattggtggacttaaacctagtaaa tacagaaaacatagaaaaacttactggacgtcaaaaagctgtactagccacacttatattaggtatagcatacacagtatattgtgttatagaaaaaggttattatattgataaactttcaggtatttttttagcaataggtattataggtggatttattggtggacttaaacctagtaaa Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UACAGAAAACAUAGAAAAACUUACUGGACGUCAAAAAGCUGUACUAGCCACACUUAUAUUAGGUAUAGCAUACACAGUAUAUUGUGUUAUAGAAAAAGGUUAUUAUAUUGAUAAACUUUCAGGUAUUUUUUUAGCAAUAGGUAUUAUAGGUGGAUUUAUUGGUGGACUUAAACCUAGUAAA ....................(((((((...((.....((((((((................))))))))..((((((....))))))....))...(((((....(((..(((((..((((..(((...((((....))))....)))..)))))))))..))))))))....))))))). (-29.99) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUACUAGGUUUAAGUCCACCAAUAAAUCCACCUAUAAUACCUAUUGCUAAAAAAAUACCUGAAAGUUUAUCAAUAUAAUAACCUUUUUCUAUAACACAAUAUACUGUGUAUGCUAUACCUAAUAUAAGUGUGGCUAGUACAGCUUUUUGACGUCCAGUAAGUUUUUCUAUGUUUUCUGUA ((((((.((.....(((............(((.((((.((..(((.((.............(((((.((((.......)))).)))))......(((((......)))))..)).)))..)).)))).))).((((.....))))....)))..))))))))................... (-21.80) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 249 90 50 155 120 NC_003454:FN0818|5end_DNA-binding_protein_HU_1477034..1477264_NEGATIVE 246 60 11 223 167 NC_003454:FN0032|5end_hypothetical_protein_669778..670008_NEGATIVE 232 156 115 73 35 NC_003454:FN1043|5end_hypothetical_protein_1694239..1694469_POSITIVE 226 176 148 36 8 NC_003454:FN2003|5end_bioY_protein_503745..503975_POSITIVE 219 180 134 194 145 NC_003454:FN0082|5end_Ethanolamine_utilization_protein_eutM_720699..720929_POSITIVE 216 77 39 197 158 NC_003454:FN1392|5end_SSU_ribosomal_protein_S16P_2049459..2049689_NEGATIVE 207 54 12 193 161 NC_003454:FN1288|5end_hypothetical_protein_1944580..1944810_POSITIVE 205 167 124 88 50 NC_003454:FN1387|5end_Metal_dependent_hydrolase_2043603..2043833_NEGATIVE 205 176 134 87 45 NC_003454:FN1825|5end_hypothetical_protein_313994..314224_POSITIVE 204 70 24 71 18 NC_003454:FN0006|5end_tRNA_modification_GTPase_644505..644735_POSITIVE 203 158 128 77 45 NC_003454:FN1986|5end_hypothetical_protein_488917..489147_POSITIVE 201 106 61 51 5 NC_003454:FN1046|5end_hypothetical_protein_1696371..1696601_POSITIVE 200 69 24 229 196 NC_003454:FN1449|5end_Fusobacterium_outer_membrane_protein_family_2128109..2128339_NEGATIVE 197 62 37 27 2 NC_003454:FN1303|5end_Adenosylcobalamin-dependent_DIOL_dehydratase_gamma_subunit_1960284..1960514_NEGATIVE 197 152 122 107 78 NC_003454:FN2032|5end_DNA-directed_RNA_polymerase_omega_chain_537315..537545_NEGATIVE 195 170 124 53 14 NC_003454:FN0627|5end_Glucosamine--fructose-6-phosphate_aminotransferase_[isomerizing]_1287165..1287395_NEGATIVE 194 177 133 219 167 NC_003454:FN0246|5end_hypothetical_protein_870797..871027_NEGATIVE 192 164 121 105 65 NC_003454:FN0815|5end_Propionate_permease_1474390..1474620_POSITIVE 191 119 75 168 119 NC_003454:FN1346|5end_Hypothetical_cytosolic_protein_1999579..1999809_NEGATIVE 190 175 133 166 124 NC_003454:FN1026|5end_tRNA_pseudouridine_synthase_A_1680823..1681053_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 216 77 39 146 107 NC_003454:FN1393|3end_Signal_recognition_particle,_subunit_FFH/SRP54_2049510..2049660_NEGATIVE 209 164 126 99 62 NC_003454:FN1749|3end_Pyruvate-flavodoxin_oxidoreductase_247705..247855_POSITIVE 204 70 24 65 12 NC_003454:FN0005|3end_Jag_protein_644579..644729_POSITIVE 197 152 122 75 46 NC_003454:FN2033|3end_Guanylate_kinase_537347..537497_NEGATIVE 191 119 75 103 54 NC_003454:FN1347|3end_Hypothetical_cytosolic_protein_1999644..1999794_NEGATIVE 188 110 61 73 15 NC_003454:FN0212|3end_hypothetical_protein_837583..837733_NEGATIVE 184 80 37 79 32 NC_003454:FN0204|3end_Glutaconyl-CoA_decarboxylase_A_subunit_831406..831556_POSITIVE 183 140 91 81 32 NC_003454:FN1340|3end_Glutamyl-tRNA_synthetase_1993353..1993503_NEGATIVE 183 140 91 62 13 NC_003454:FN0528|3end_Cold_shock_protein_1184746..1184896_POSITIVE 183 140 91 58 9 NC_003454:FN0371|3end_hypothetical_protein_1000840..1000990_POSITIVE 181 98 52 82 33 NC_003454:FN0789|3end_Transporter_1444436..1444586_NEGATIVE 181 179 148 39 9 NC_003454:FN0171|3end_Hypothetical_cytosolic_protein_796921..797071_POSITIVE 179 58 28 36 1 NC_003454:FN0010|3end_nicotinate-nucleotide_pyrophosphorylase_651118..651268_POSITIVE 178 105 65 86 46 NC_003454:FN2075|3end_hypothetical_protein_586440..586590_NEGATIVE 178 176 154 85 57 NC_003454:FN1797|3end_Spermidine/putrescine_transport_ATP-binding_protein_potA_280031..280181_POSITIVE 177 166 121 121 79 NC_003454:FN1460|3end_Hypothetical_cytosolic_protein_2141682..2141832_POSITIVE 175 87 45 96 45 NC_003454:FN0112|3end_hypothetical_protein_746600..746750_POSITIVE 175 55 18 60 24 NC_003454:FN1905|3end_168_kDa_surface-layer_protein_precursor_393653..393803_NEGATIVE 174 97 53 60 10 NC_003454:FN1269|3end_Hypothetical_lipoprotein_1925613..1925763_NEGATIVE 174 166 132 68 35 NC_003454:FN0715|3end_hypothetical_protein_1374056..1374206_POSITIVE