Origin IGS: atttaaaattctattagaaaaataaggctgttacaaatcaaactattgaaatgaaaataagtgaaattacattctaatgatgcgaattcttgattttttatcattaagaaatttagctagtaatgaactattttttatctcatttgtaagtttgtaacagcccctttatttt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aaaataaaggggctgttacaaacttacaaatgagataaaaaatagttcattactagctaaatttcttaatgataaaaaatcaagaattcgcatcattagaatgtaatttcacttattttcatttcaatagtttgatttgtaacagccttatttttctaatagaattttaaat Mask Tandem Repeat Region ================================================ atttaaaattctattagaaaaataaggctgttacaaatcaaactattgaaatgaaaataagtgaaattacattctaatgatgcgaattcttgattttttatcattaagaaatttagctagtaatgaactattttttatctcatttgtaagtttgtaacagcccctttatttt Find is-nt database================================================ Query_seq: FN1825:FN1826|FN1825:FN1826:hypothetical protein:Protease:-><-:314572..314743 172 atttaaaattctattagaaaaataaggctgttacaaatcaaactattgaaatgaaaataagtgaaattacattctaatgatgcgaattcttgattttttatcattaagaaatttagctagtaatgaactattttttatctcatttgtaagtttgtaacagcccctttatttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: FN1825:FN1826|FN1825:FN1826:hypothetical protein:Protease:-><-:314572..314743 172 atttaaaattctattagaaaaataaggctgttacaaatcaaactattgaaatgaaaataagtgaaattacattctaatgatgcgaattcttgattttttatcattaagaaatttagctagtaatgaactattttttatctcatttgtaagtttgtaacagcccctttatttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: FN1825:FN1826|FN1825:FN1826:hypothetical protein:Protease:-><-:314572..314743 172 atttaaaattctattagaaaaataaggctgttacaaatcaaactattgaaatgaaaataagtgaaattacattctaatgatgcgaattcttgattttttatcattaagaaatttagctagtaatgaactattttttatctcatttgtaagtttgtaacagcccctttatttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 atttaaaattctattagaaaaataaggctgttacaaatcaaactattgaaatgaaaataagtgaaattacattctaatgatgcgaattcttgattttttatcattaagaaatttagctagtaatgaactattttttatctcatttgtaagtttgtaacagcccctttatttt Predict ORF larger than 30AA ================================================ Protein_Len: 34 Strand: - Start: 6 End: 104 ..... * F E I L F I L S N C I L S N F H F Y T F N C E L S A F E Q N K I M .................................................................... atttaaaattctattagaaaaataaggctgttacaaatcaaactattgaaatgaaaataagtgaaattacattctaatgatgcgaattcttgattttttatcattaagaaatttagctagtaatgaactattttttatctcatttgtaagtttgtaacagcccctttatttt 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: 83 Start: 8 End: 37 .......TTTGTAACAGCCTTATTTTTCTAATAGAAT....................................................................................................................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ atttaaaattctattagaaaaataaggctgttacaaatcaaactattgaaatgaaaataagtgaaattacattctaatgatgcgaattcttgattttttatcattaagaaatttagctagtaatgaactattttttatctcatttgtaagtttgtaacagcccctttatttt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: FN1825:FN1826|FN1825:FN1826:hypothetical protein:Protease:-><-:314572..314743 172 atttaaaattctattagaaaaataaggctgttacaaatcaaactattgaaatgaaaataagtgaaattacattctaatgatgcgaattcttgattttttatcattaagaaatttagctagtaatgaactattttttatctcatttgtaagtttgtaacagcccctttatttt Intra-Species Hit: Count: 1 Min: 1 Max: 172 Len: 172 Subject: NC_003454_FN1825_FN1826|hypothetical protein:Protease|POSITIVE:NEGATIVE|[314572,314743]|172 HSP 1 e-value: 5.0E-93 bit: 341.0 Len: 172 Query Start:1 Query End:172 Subject Strand: POSITIVE Subject Start: 1 Subject End: 172 atttaaaattctattagaaaaataaggctgttacaaatcaaactattgaaatgaaaataagtgaaattacattctaatgatgcgaattcttgattttttatcattaagaaatttagctagtaatgaactattttttatctcatttgtaagtttgtaacagcccctttatttt atttaaaattctattagaaaaataaggctgttacaaatcaaactattgaaatgaaaataagtgaaattacattctaatgatgcgaattcttgattttttatcattaagaaatttagctagtaatgaactattttttatctcatttgtaagtttgtaacagcccctttatttt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUUUAAAAUUCUAUUAGAAAAAUAAGGCUGUUACAAAUCAAACUAUUGAAAUGAAAAUAAGUGAAAUUACAUUCUAAUGAUGCGAAUUCUUGAUUUUUUAUCAUUAAGAAAUUUAGCUAGUAAUGAACUAUUUUUUAUCUCAUUUGUAAGUUUGUAACAGCCCCUUUAUUUU ..................((((((((((((((((((((...((...(((.(((((((..(((...(((((..((....)).(((((((((((((........)))))).))))).))..)))))..)))..))))))).)))...))..)))))))))))))...))))))) (-38.90) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAAAUAAAGGGGCUGUUACAAACUUACAAAUGAGAUAAAAAAUAGUUCAUUACUAGCUAAAUUUCUUAAUGAUAAAAAAUCAAGAAUUCGCAUCAUUAGAAUGUAAUUUCACUUAUUUUCAUUUCAAUAGUUUGAUUUGUAACAGCCUUAUUUUUCUAAUAGAAUUUUAAAU ........(((((((((((((((..((...((((((.((((..(((..(((((...((((..((((...((((.....)))))))).........))))...)))))...)))..)))).))))))...))..).))))))))))))))....................... (-33.30) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 590 130 82 98 50 NC_003454:FN0797|5end_hypothetical_protein_1455799..1456029_NEGATIVE 481 130 82 167 119 NC_003454:FN1821|5end_Hypothetical_cytosolic_protein_311031..311261_POSITIVE 366 126 82 91 47 NC_003454:FN0171|5end_Hypothetical_cytosolic_protein_796548..796778_POSITIVE 340 159 111 198 155 NC_003454:FN1070|5end_glucose-inhibited_division_protein_A_1717121..1717351_POSITIVE 305 126 81 199 155 NC_003454:FN2080|5end_ABC_transporter_integral_membrane_protein_591957..592187_NEGATIVE 295 147 104 198 155 NC_003454:FN0670|5end_High-affinity_zinc_uptake_system_membrane_protein_znuB_1325702..1325932_POSITIVE 291 76 38 143 107 NC_003454:FN1918|5end_SPO0B-associated_GTP-binding_protein_415026..415256_NEGATIVE 268 170 121 169 111 NC_003454:FN1935|5end_Adenine-specific_methyltransferase_437061..437291_NEGATIVE 263 138 92 207 161 NC_003454:FN0921|5end_hypothetical_protein_1576482..1576712_NEGATIVE 260 145 103 224 185 NC_003454:FN1384|5end_IAA_acetyltransferase_2038256..2038486_NEGATIVE 247 77 37 201 164 NC_003454:FN0484|5end_Lipase_1129470..1129700_POSITIVE 235 77 49 219 191 NC_003454:FN0130|5end_ABC_transporter_ATP-binding_protein_758586..758816_POSITIVE 232 165 149 188 172 NC_003454:FN1477|5end_Hypothetical_membrane-spanning_protein_2159504..2159734_POSITIVE 232 83 41 84 44 NC_003454:FN0978|5end_NA+/H+_antiporter_NHAC_1631965..1632195_NEGATIVE 231 148 105 229 182 NC_003454:FN0423|5end_Dihydroorotate_dehydrogenase_electron_transfer_subunit_1066328..1066558_POSITIVE 229 81 45 151 116 NC_003454:FN1822|5end_Flavodoxin_311148..311378_POSITIVE 221 77 31 164 110 NC_003454:FN1217|5end_Holliday_junction_DNA_helicase_ruvB_1877597..1877827_NEGATIVE 217 70 26 172 127 NC_003454:FN0117|5end_O6-methylguanine-DNA_methyltransferase_750338..750568_POSITIVE 210 76 37 146 107 NC_003454:FN2095|5end_General_secretion_pathway_protein_E_606080..606310_NEGATIVE 209 143 103 96 60 NC_003454:FN2119|5end_Hypothetical_exported_24-amino_acid_repeat_protein_628052..628282_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 554 127 82 46 2 NC_003454:FN0359|3end_ATP_synthase_gamma_chain,_sodium_ion_specific_989995..990145_NEGATIVE 553 138 91 83 36 NC_003454:FN1218|3end_hypothetical_protein_1877812..1877962_NEGATIVE 513 130 82 73 25 NC_003454:FN0069|3end_glycyl-tRNA_synthetase_alpha_subunit_708761..708911_POSITIVE 505 130 82 90 43 NC_003454:FN2005|3end_Cobalt_transport_ATP-binding_protein_cbiO_505976..506126_POSITIVE 489 130 82 80 32 NC_003454:FN0084|3end_Acetaldehyde_dehydrogenase_[acetylating]_723094..723244_POSITIVE 481 130 82 72 24 NC_003454:FN1820|3end_Export_ABC_transporter_311016..311166_POSITIVE 479 129 82 76 29 NC_003454:FN1836|3end_Tetratricopeptide_repeat_family_protein_323904..324054_NEGATIVE 469 129 82 76 29 NC_003454:FN1461|3end_Histidinol-phosphatase_2141603..2141753_NEGATIVE 456 130 82 87 39 NC_003454:FN0391|3end_Hydrolase_(HAD_superfamily)_1029496..1029646_POSITIVE 435 130 82 87 39 NC_003454:FN2096|3end_hypothetical_protein_606267..606417_NEGATIVE 423 130 82 49 2 NC_003454:FN0046|3end_3-dehydroquinate_dehydratase_684265..684415_POSITIVE 407 130 82 76 28 NC_003454:FN1811|3end_Manganese_transport_system_ATP-binding_protein_mntA_292161..292311_NEGATIVE 406 126 81 75 30 NC_003454:FN1487|3end_hypothetical_protein_2169559..2169709_NEGATIVE 398 129 82 56 10 NC_003454:FN0129|3end_Urease_accessory_protein_ureG_758370..758520_POSITIVE 385 130 82 79 31 NC_003454:FN0483|3end_Uracil_phosphoribosyltransferase_1129301..1129451_POSITIVE 382 130 84 88 42 NC_003454:FN0907|3end_Ribosomal_RNA_small_subunit_methyltransferase_C_1565324..1565474_NEGATIVE 366 126 82 76 32 NC_003454:FN0170|3end_GTP-binding_protein_796613..796763_POSITIVE 349 129 87 43 1 NC_003454:FN0116|3end_Chaperone_protein_dnaK_750156..750306_POSITIVE 346 126 81 83 35 NC_003454:FN1809|3end_Iron/zinc/copper-binding_protein_290180..290330_NEGATIVE 340 159 111 79 36 NC_003454:FN1069|3end_DNA_topoisomerase_I_1717082..1717232_POSITIVE