Origin IGS: tagacaataatttgattgaaaaaatttatataatagtgtacaatataggttagaattaaattagggaggtcatttttaaatgaaaaagaattttttagcagtattaactttattactttctttactatta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taatagtaaagaaagtaataaagttaatactgctaaaaaattctttttcatttaaaaatgacctccctaatttaattctaacctatattgtacactattatataaattttttcaatcaaattattgtcta Mask Tandem Repeat Region ================================================ tagacaataatttgattgaaaaaatttatataatagtgtacaatataggttagaattaaattagggaggtcatttttaaatgaaaaagaattttttagcagtattaactttattactttctttactatta Find is-nt database================================================ Query_seq: FN2102:FN2103|FN2102:FN2103:ABC transporter ATP-binding protein:RecA protein:->->:613213..613342 130 tagacaataatttgattgaaaaaatttatataatagtgtacaatataggttagaattaaattagggaggtcatttttaaatgaaaaagaattttttagcagtattaactttattactttctttactatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: FN2102:FN2103|FN2102:FN2103:ABC transporter ATP-binding protein:RecA protein:->->:613213..613342 130 tagacaataatttgattgaaaaaatttatataatagtgtacaatataggttagaattaaattagggaggtcatttttaaatgaaaaagaattttttagcagtattaactttattactttctttactatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: FN2102:FN2103|FN2102:FN2103:ABC transporter ATP-binding protein:RecA protein:->->:613213..613342 130 tagacaataatttgattgaaaaaatttatataatagtgtacaatataggttagaattaaattagggaggtcatttttaaatgaaaaagaattttttagcagtattaactttattactttctttactatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tagacaataatttgattgaaaaaatttatataatagtgtacaatataggttagaattaaattagggaggtcatttttaaatgaaaaagaattttttagcagtattaactttattactttctttactatta Predict ORF larger than 30AA ================================================ Protein_Len: 42 Strand: - Start: 3 End: 128 .. V I I Q N F F N I Y Y H V I Y T L I L N P L D N K F S F S N K L L I L K I V K K V M .. tagacaataatttgattgaaaaaatttatataatagtgtacaatataggttagaattaaattagggaggtcatttttaaatgaaaaagaattttttagcagtattaactttattactttctttactatta 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: 15 End: 44 ..............ATTGAAAAAATTTATATAATAGTGTACAAT...................................................................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ tagacaataatttgattgaaaaaatttatataatagtgtacaatataggttagaattaaattagggaggtcatttttaaatgaaaaagaattttttagcagtattaactttattactttctttactatta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: FN2102:FN2103|FN2102:FN2103:ABC transporter ATP-binding protein:RecA protein:->->:613213..613342 130 tagacaataatttgattgaaaaaatttatataatagtgtacaatataggttagaattaaattagggaggtcatttttaaatgaaaaagaattttttagcagtattaactttattactttctttactatta Intra-Species Hit: Count: 1 Min: 1 Max: 130 Len: 130 Subject: NC_003454_FN2102_FN2103|ABC transporter ATP-binding protein:RecA protein|POSITIVE:POSITIVE|[613213,613342]|130 HSP 1 e-value: 4.0E-68 bit: 258.0 Len: 130 Query Start:1 Query End:130 Subject Strand: POSITIVE Subject Start: 1 Subject End: 130 tagacaataatttgattgaaaaaatttatataatagtgtacaatataggttagaattaaattagggaggtcatttttaaatgaaaaagaattttttagcagtattaactttattactttctttactatta tagacaataatttgattgaaaaaatttatataatagtgtacaatataggttagaattaaattagggaggtcatttttaaatgaaaaagaattttttagcagtattaactttattactttctttactatta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGACAAUAAUUUGAUUGAAAAAAUUUAUAUAAUAGUGUACAAUAUAGGUUAGAAUUAAAUUAGGGAGGUCAUUUUUAAAUGAAAAAGAAUUUUUUAGCAGUAUUAACUUUAUUACUUUCUUUACUAUUA ..(((..((((((((((.....(((((((((...........)))))))))..)))))))))).....))).......((((..((((((..(..(((.(((....))))))..)..))))))..)))). (-15.20) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUAGUAAAGAAAGUAAUAAAGUUAAUACUGCUAAAAAAUUCUUUUUCAUUUAAAAAUGACCUCCCUAAUUUAAUUCUAACCUAUAUUGUACACUAUUAUAUAAAUUUUUUCAAUCAAAUUAUUGUCUA (((((((((((((........(((....))).........)))))).(((((....)))))................................))))))).............................. ( -7.93) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 215 79 34 76 19 NC_003454:FN1898|5end_Sugar_transport_ATP-binding_protein_386569..386799_NEGATIVE 208 87 42 207 161 NC_003454:FN0122|5end_hypothetical_protein_753401..753631_POSITIVE 204 130 83 123 69 NC_003454:FN0927|5end_hypothetical_protein_1582352..1582582_NEGATIVE 179 70 33 231 196 NC_003454:FN0814|5end_Propionate_CoA-transferase_1472717..1472947_POSITIVE 179 127 87 230 191 NC_003454:FN2058|5end_Fusobacterium_outer_membrane_protein_family_571095..571325_NEGATIVE 178 128 91 145 111 NC_003454:FN1330|5end_S-adenosylmethionine:tRNA_ribosyltransferase-isomerase_1984958..1985188_NEGATIVE 177 130 93 38 10 NC_003454:FN0928|5end_O-sialoglycoprotein_endopeptidase_1583026..1583256_NEGATIVE 177 119 71 55 1 NC_003454:FN1753|5end_thiamine_biosynthesis_protein_ThiH_250344..250574_NEGATIVE 176 129 109 112 92 NC_003454:FN1850|5end_3-oxoacyl-[acyl-carrier-protein]_synthase_III_339205..339435_POSITIVE 174 89 45 130 88 NC_003454:FN1882|5end_hypothetical_protein_368560..368790_POSITIVE 173 127 88 189 156 NC_003454:FN0200|5end_Biotin_carboxyl_carrier_protein_of_glutaconyl-COA_decarboxylase_826123..826353_POSITIVE 170 128 91 208 171 NC_003454:FN2040|5end_LSU_ribosomal_protein_L11P_549043..549273_NEGATIVE 169 119 80 109 67 NC_003454:FN2115|5end_hypothetical_protein_624843..625073_NEGATIVE 164 80 35 73 30 NC_003454:FN1060|5end_Molybdate_metabolism_regulator_1707796..1708026_NEGATIVE 164 119 72 102 53 NC_003454:FN2004|5end_Cobalt_transport_ATP-binding_protein_cbiO_504303..504533_POSITIVE 164 120 72 210 162 NC_003454:FN1717|5end_NAD-dependent_DNA_ligase_213150..213380_POSITIVE 162 87 41 225 181 NC_003454:FN0602|5end_hypothetical_protein_1256649..1256879_POSITIVE 162 129 90 196 159 NC_003454:FN0339|5end_hypothetical_protein_972035..972265_POSITIVE 162 128 85 73 33 NC_003454:FN1724|5end_Potassium_uptake_protein_KtrA_223310..223540_NEGATIVE 161 126 93 109 65 NC_003454:FN2122|5end_Phenylalanyl-tRNA_synthetase_beta_chain_632194..632424_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 224 75 35 106 65 NC_003454:FN1705|3end_hypothetical_protein_201464..201614_NEGATIVE 204 130 83 93 39 NC_003454:FN0928|3end_O-sialoglycoprotein_endopeptidase_1582382..1582532_NEGATIVE 185 96 51 68 24 NC_003454:FN1884|3end_hypothetical_protein_370328..370478_NEGATIVE 181 52 25 29 5 NC_003454:FN0106|3end_hypothetical_protein_741462..741612_POSITIVE 177 130 93 57 29 NC_003454:FN0929|3end_ATP/GTP_hydrolase_1583007..1583157_NEGATIVE 177 119 71 55 1 NC_003454:FN1754|3end_thiazole_synthase_250344..250494_NEGATIVE 176 129 109 115 95 NC_003454:FN1849|3end_Coenzyme_F390_synthetase_339288..339438_POSITIVE 173 130 86 104 51 NC_003454:FN1218|3end_hypothetical_protein_1877812..1877962_NEGATIVE 173 127 88 151 118 NC_003454:FN0199|3end_hypothetical_protein_826165..826315_POSITIVE 172 103 61 136 91 NC_003454:FN0886|3end_Hemin_receptor_1547830..1547980_POSITIVE 164 80 35 53 10 NC_003454:FN1061|3end_hypothetical_protein_1707816..1707966_NEGATIVE 164 119 72 92 43 NC_003454:FN2003|3end_bioY_protein_504373..504523_POSITIVE 164 120 72 105 57 NC_003454:FN1716|3end_hypothetical_protein_213125..213275_POSITIVE 162 128 85 58 18 NC_003454:FN1725|3end_Potassium_uptake_protein_KtrB_223325..223475_NEGATIVE 161 126 93 95 51 NC_003454:FN2123|3end_Phenylalanyl-tRNA_synthetase_alpha_chain_632208..632358_NEGATIVE 158 127 91 66 34 NC_003454:FN1286|3end_30S_ribosomal_protein_S13_1943718..1943868_NEGATIVE 157 83 46 66 33 NC_003454:FN1656|3end_SSU_ribosomal_protein_S18P_152542..152692_NEGATIVE 155 89 47 53 13 NC_003454:FN1059|3end_Branched_chain_amino_acid_transport_system_II_carrier_protein_1707020..1707170_POSITIVE 154 71 47 144 118 NC_003454:FN1908|3end_Glycerophosphoryl_diester_phosphodiesterase_400596..400746_NEGATIVE 151 129 89 36 2 NC_003454:FN0644|3end_UROPORPHYRINOGEN-III_SYNTHASE_1299887..1300037_NEGATIVE