Origin IGS: gaaaataatatttatacaaaaaataagtgaaaagcattctaaattttttatcgttaagaaatttagctggcaatgaactatttttttgaaactaatggaggttaaa .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tttaacctccattagtttcaaaaaaatagttcattgccagctaaatttcttaacgataaaaaatttagaatgcttttcacttattttttgtataaatattattttc Mask Tandem Repeat Region ================================================ gaaaataatatttatacaaaaaataagtgaaaagcattctaaattttttatcgttaagaaatttagctggcaatgaactatttttttgaaactaatggaggttaaa Find is-nt database================================================ Query_seq: FN0080:FN0081|FN0080:FN0081:ethanolamine ammonia-lyase small subunit:Ethanolamine utilization protein eutL:->->:720069..720174 106 gaaaataatatttatacaaaaaataagtgaaaagcattctaaattttttatcgttaagaaatttagctggcaatgaactatttttttgaaactaatggaggttaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: FN0080:FN0081|FN0080:FN0081:ethanolamine ammonia-lyase small subunit:Ethanolamine utilization protein eutL:->->:720069..720174 106 gaaaataatatttatacaaaaaataagtgaaaagcattctaaattttttatcgttaagaaatttagctggcaatgaactatttttttgaaactaatggaggttaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: FN0080:FN0081|FN0080:FN0081:ethanolamine ammonia-lyase small subunit:Ethanolamine utilization protein eutL:->->:720069..720174 106 gaaaataatatttatacaaaaaataagtgaaaagcattctaaattttttatcgttaagaaatttagctggcaatgaactatttttttgaaactaatggaggttaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gaaaataatatttatacaaaaaataagtgaaaagcattctaaattttttatcgttaagaaatttagctggcaatgaactatttttttgaaactaatggaggttaaa Predict ORF larger than 30AA ================================================ Protein_Len: 32 Strand: - Start: 1 End: 96 F I I N I C F I L S F C E L N K I T L F N L Q C H V I K K F S M .......... gaaaataatatttatacaaaaaataagtgaaaagcattctaaattttttatcgttaagaaatttagctggcaatgaactatttttttgaaactaatggaggttaaa 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: 82 Start: 45 End: 74 ............................................ATTGCCAGCTAAATTTCTTAACGATAAAAA................................ Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ gaaaataatatttatacaaaaaataagtgaaaagcattctaaattttttatcgttaagaaatttagctggcaatgaactatttttttgaaactaatggaggttaaa Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: FN0080:FN0081|FN0080:FN0081:ethanolamine ammonia-lyase small subunit:Ethanolamine utilization protein eutL:->->:720069..720174 106 gaaaataatatttatacaaaaaataagtgaaaagcattctaaattttttatcgttaagaaatttagctggcaatgaactatttttttgaaactaatggaggttaaa Intra-Species Hit: Count: 1 Min: 1 Max: 106 Len: 106 Subject: NC_003454_FN0080_FN0081|ethanolamine ammonia-lyase small subunit:Ethanolamine utilization protein eutL|POSITIVE:POSITIVE|[720069,720174]|106 HSP 1 e-value: 2.0E-41 bit: 168.0 Len: 106 Query Start:1 Query End:106 Subject Strand: POSITIVE Subject Start: 1 Subject End: 106 gaaaataatatttatacaaaaaataagtgaaaagcattctaaattttttatcgttaagaaatttagctggcaatgaactannnnnnngaaactaatggaggttaaa gaaaataatatttatacaaaaaataagtgaaaagcattctaaattttttatcgttaagaaatttagctggcaatgaactatttttttgaaactaatggaggttaaa Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GAAAAUAAUAUUUAUACAAAAAAUAAGUGAAAAGCAUUCUAAAUUUUUUAUCGUUAAGAAAUUUAGCUGGCAAUGAACUAUUUUUUUGAAACUAAUGGAGGUUAAA ................(((((((..(((.....((...((((((((((((....))))))))))))...)).....)))..))))))).((((......))))... (-18.40) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUAACCUCCAUUAGUUUCAAAAAAAUAGUUCAUUGCCAGCUAAAUUUCUUAACGAUAAAAAAUUUAGAAUGCUUUUCACUUAUUUUUUGUAUAAAUAUUAUUUUC ...........(((....(((((((..(((.....((...((((((((.(((....))).))))))))...)).....)))..)))))))..)))........... (-12.20) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 531 80 33 98 49 NC_003454:FN0797|5end_hypothetical_protein_1455799..1456029_NEGATIVE 378 80 33 167 118 NC_003454:FN1821|5end_Hypothetical_cytosolic_protein_311031..311261_POSITIVE 294 73 33 91 46 NC_003454:FN0171|5end_Hypothetical_cytosolic_protein_796548..796778_POSITIVE 264 87 43 210 166 NC_003454:FN2080|5end_ABC_transporter_integral_membrane_protein_591957..592187_NEGATIVE 258 77 33 209 167 NC_003454:FN1384|5end_IAA_acetyltransferase_2038256..2038486_NEGATIVE 256 47 5 224 184 NC_003454:FN0130|5end_ABC_transporter_ATP-binding_protein_758586..758816_POSITIVE 253 47 18 169 139 NC_003454:FN1217|5end_Holliday_junction_DNA_helicase_ruvB_1877597..1877827_NEGATIVE 253 47 18 152 122 NC_003454:FN2006|5end_Cobalt_transport_protein_cbiQ_506079..506309_POSITIVE 249 67 21 179 136 NC_003454:FN1810|5end_Manganese_transport_system_membrane_protein_mntB_291953..292183_NEGATIVE 240 47 19 184 156 NC_003454:FN2036|5end_DNA-directed_RNA_polymerase_beta_chain_546371..546601_NEGATIVE 236 70 21 171 130 NC_003454:FN0670|5end_High-affinity_zinc_uptake_system_membrane_protein_znuB_1325702..1325932_POSITIVE 230 86 55 180 149 NC_003454:FN1070|5end_glucose-inhibited_division_protein_A_1717121..1717351_POSITIVE 219 73 31 45 3 NC_003454:FN0943|5end_Sensory_Transduction_Protein_Kinase_1596800..1597030_POSITIVE 207 76 35 197 156 NC_003454:FN1917|5end_tRNA_delta(2)-isopentenylpyrophosphate_transferase_413756..413986_NEGATIVE 204 88 46 120 83 NC_003454:FN2008|5end_Glycine_betaine_transport_ATP-binding_protein_508319..508549_NEGATIVE 202 68 23 74 27 NC_003454:FN1131|5end_hypothetical_protein_1778823..1779053_POSITIVE 201 88 42 229 171 NC_003454:FN0856|5end_glycogen_branching_enzyme_1516524..1516754_NEGATIVE 199 47 4 172 130 NC_003454:FN0070|5end_Glycyl-tRNA_synthetase_beta_chain_708902..709132_POSITIVE 191 69 22 72 23 NC_003454:FN0892|5end_Phosphoserine_phosphatase_1553046..1553276_POSITIVE 191 47 19 206 178 NC_003454:FN0484|5end_Lipase_1129470..1129700_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 540 86 42 81 37 NC_003454:FN1218|3end_hypothetical_protein_1877812..1877962_NEGATIVE 528 82 42 92 52 NC_003454:FN2005|3end_Cobalt_transport_ATP-binding_protein_cbiO_505976..506126_POSITIVE 470 86 42 55 11 NC_003454:FN0046|3end_3-dehydroquinate_dehydratase_684265..684415_POSITIVE 458 86 43 54 11 NC_003454:FN1826|3end_Protease_314654..314804_NEGATIVE 428 85 42 81 38 NC_003454:FN1811|3end_Manganese_transport_system_ATP-binding_protein_mntA_292161..292311_NEGATIVE 382 85 42 62 19 NC_003454:FN0129|3end_Urease_accessory_protein_ureG_758370..758520_POSITIVE 378 80 33 87 38 NC_003454:FN0391|3end_Hydrolase_(HAD_superfamily)_1029496..1029646_POSITIVE 378 80 33 72 23 NC_003454:FN1820|3end_Export_ABC_transporter_311016..311166_POSITIVE 373 77 33 46 1 NC_003454:FN0359|3end_ATP_synthase_gamma_chain,_sodium_ion_specific_989995..990145_NEGATIVE 366 79 33 76 28 NC_003454:FN1461|3end_Histidinol-phosphatase_2141603..2141753_NEGATIVE 358 80 33 80 31 NC_003454:FN0084|3end_Acetaldehyde_dehydrogenase_[acetylating]_723094..723244_POSITIVE 355 80 33 73 24 NC_003454:FN0069|3end_glycyl-tRNA_synthetase_alpha_subunit_708761..708911_POSITIVE 348 79 33 76 28 NC_003454:FN1836|3end_Tetratricopeptide_repeat_family_protein_323904..324054_NEGATIVE 330 80 33 87 38 NC_003454:FN2096|3end_hypothetical_protein_606267..606417_NEGATIVE 296 84 45 92 52 NC_003454:FN0907|3end_Ribosomal_RNA_small_subunit_methyltransferase_C_1565324..1565474_NEGATIVE 294 73 33 76 31 NC_003454:FN0170|3end_GTP-binding_protein_796613..796763_POSITIVE 284 79 37 43 1 NC_003454:FN0116|3end_Chaperone_protein_dnaK_750156..750306_POSITIVE 267 76 34 75 31 NC_003454:FN1487|3end_hypothetical_protein_2169559..2169709_NEGATIVE 264 87 43 92 48 NC_003454:FN2081|3end_ABC_transporter_substrate-binding_protein_592075..592225_NEGATIVE 258 77 33 71 29 NC_003454:FN1385|3end_hypothetical_protein_2038394..2038544_NEGATIVE