Origin IGS: atgaataaagtttataataaaattaaagaatttttagaaaatcctattgagaatatggaagatttttatgatagaattttaaaaaataactaatatggaggagatatgattacttggaatgatgtattttctgctaatttaggaaaaatgatggcaatacaaattgcttgtggagaactt .........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 aagttctccacaagcaatttgtattgccatcatttttcctaaattagcagaaaatacatcattccaagtaatcatatctcctccatattagttattttttaaaattctatcataaaaatcttccatattctcaataggattttctaaaaattctttaattttattataaactttattcat Mask Tandem Repeat Region ================================================ atgaataaagtttataataaaattaaagaatttttagaaaatcctattgagaatatggaagatttttatgatagaattttaaaaaataactaatatggaggagatatgattacttggaatgatgtattttctgctaatttaggaaaaatgatggcaatacaaattgcttgtggagaactt Find is-nt database================================================ Query_seq: FN0834:FN0835|FN0834:FN0835:hypothetical protein:hypothetical protein:->->:1498149..1498328 180 atgaataaagtttataataaaattaaagaatttttagaaaatcctattgagaatatggaagatttttatgatagaattttaaaaaataactaatatggaggagatatgattacttggaatgatgtattttctgctaatttaggaaaaatgatggcaatacaaattgcttgtggagaactt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: FN0834:FN0835|FN0834:FN0835:hypothetical protein:hypothetical protein:->->:1498149..1498328 180 atgaataaagtttataataaaattaaagaatttttagaaaatcctattgagaatatggaagatttttatgatagaattttaaaaaataactaatatggaggagatatgattacttggaatgatgtattttctgctaatttaggaaaaatgatggcaatacaaattgcttgtggagaactt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: FN0834:FN0835|FN0834:FN0835:hypothetical protein:hypothetical protein:->->:1498149..1498328 180 atgaataaagtttataataaaattaaagaatttttagaaaatcctattgagaatatggaagatttttatgatagaattttaaaaaataactaatatggaggagatatgattacttggaatgatgtattttctgctaatttaggaaaaatgatggcaatacaaattgcttgtggagaactt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 atgaataaagtttataataaaattaaagaatttttagaaaatcctattgagaatatggaagatttttatgatagaattttaaaaaataactaatatggaggagatatgattacttggaatgatgtattttctgctaatttaggaaaaatgatggcaatacaaattgcttgtggagaactt Predict ORF larger than 30AA ================================================ Protein_Len: 30 Strand: + Start: 1 End: 90 M N K V Y N K I K E F L E N P I E N M E D F Y D R I L K N N .......................................................................................... atgaataaagtttataataaaattaaagaatttttagaaaatcctattgagaatatggaagatttttatgatagaattttaaaaaataactaatatggaggagatatgattacttggaatgatgtattttctgctaatttaggaaaaatgatggcaatacaaattgcttgtggagaactt 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================================================ atgaataaagtttataataaaattaaagaatttttagaaaatcctattgagaatatggaagatttttatgatagaattttaaaaaataactaatatggaggagatatgattacttggaatgatgtattttctgctaatttaggaaaaatgatggcaatacaaattgcttgtggagaactt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: FN0834:FN0835|FN0834:FN0835:hypothetical protein:hypothetical protein:->->:1498149..1498328 180 atgaataaagtttataataaaattaaagaatttttagaaaatcctattgagaatatggaagatttttatgatagaattttaaaaaataactaatatggaggagatatgattacttggaatgatgtattttctgctaatttaggaaaaatgatggcaatacaaattgcttgtggagaactt Intra-Species Hit: Count: 1 Min: 1 Max: 180 Len: 180 Subject: NC_003454_FN0834_FN0835|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[1498149,1498328]|180 HSP 1 e-value: 8.0E-98 bit: 357.0 Len: 180 Query Start:1 Query End:180 Subject Strand: POSITIVE Subject Start: 1 Subject End: 180 atgaataaagtttataataaaattaaagaatttttagaaaatcctattgagaatatggaagatttttatgatagaattttaaaaaataactaatatggaggagatatgattacttggaatgatgtattttctgctaatttaggaaaaatgatggcaatacaaattgcttgtggagaactt atgaataaagtttataataaaattaaagaatttttagaaaatcctattgagaatatggaagatttttatgatagaattttaaaaaataactaatatggaggagatatgattacttggaatgatgtattttctgctaatttaggaaaaatgatggcaatacaaattgcttgtggagaactt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUGAAUAAAGUUUAUAAUAAAAUUAAAGAAUUUUUAGAAAAUCCUAUUGAGAAUAUGGAAGAUUUUUAUGAUAGAAUUUUAAAAAAUAACUAAUAUGGAGGAGAUAUGAUUACUUGGAAUGAUGUAUUUUCUGCUAAUUUAGGAAAAAUGAUGGCAAUACAAAUUGCUUGUGGAGAACUU .......((((((................((((((..(((((.(((((((((((.......))))))..))))).))))).))))))..((((..((((((((((((.((((.......))))))))))))).)))..))))..........((((((....))))))......)))))) (-24.20) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAGUUCUCCACAAGCAAUUUGUAUUGCCAUCAUUUUUCCUAAAUUAGCAGAAAAUACAUCAUUCCAAGUAAUCAUAUCUCCUCCAUAUUAGUUAUUUUUUAAAAUUCUAUCAUAAAAAUCUUCCAUAUUCUCAAUAGGAUUUUCUAAAAAUUCUUUAAUUUUAUUAUAAACUUUAUUCAU (((((........(((((....))))).............(((((((.((((..(((..........)))........................((((..((((((((((.......................))))))))))..)))).))))))))))).......)))))....... (-13.50) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 243 108 65 194 148 NC_003454:FN0916|5end_hypothetical_protein_1572514..1572744_NEGATIVE 210 140 96 55 5 NC_003454:FN0172|5end_RNA_binding_protein_797000..797230_POSITIVE 206 122 92 190 161 NC_003454:FN0510|5end_hypothetical_protein_1160326..1160556_NEGATIVE 197 168 130 101 60 NC_003454:FN1650|5end_Oligopeptide_transport_system_permease_protein_oppC_144834..145064_NEGATIVE 195 111 83 231 205 NC_003454:FN0319|5end_Citrate_(pro-3S)-lyase_ligase_956855..957085_NEGATIVE 195 155 113 52 9 NC_003454:FN0196|5end_Transcriptional_regulator,_FUR_family_822317..822547_POSITIVE 192 156 114 229 186 NC_003454:FN0072|5end_2-amino-4-hydroxy-6-_hydroxymethyldihydropteridine_pyrophosphokinase_711715..711945_POSITIVE 191 159 112 74 32 NC_003454:FN0991|5end_CDP-diacylglycerol--serine_O-phosphatidyltransferase_1645810..1646040_POSITIVE 191 176 131 60 22 NC_003454:FN2077|5end_NA+/H+_antiporter_NHAC_587900..588130_POSITIVE 187 109 61 197 151 NC_003454:FN0896|5end_hypothetical_protein_1555780..1556010_NEGATIVE 180 91 57 203 171 NC_003454:FN0564|5end_hypothetical_protein_1217017..1217247_NEGATIVE 180 108 64 209 160 NC_003454:FN2083|5end_hypothetical_protein_595642..595872_NEGATIVE 174 126 93 51 18 NC_003454:FN0541|5end_Hypothetical_cytosolic_protein_1194162..1194392_POSITIVE 174 160 120 57 17 NC_003454:FN0490|5end_Integral_membrane_protein_1136234..1136464_NEGATIVE 173 135 91 32 2 NC_003454:FN0053|5end_Branched-chain_amino_acid_transport_system_carrier_protein_689340..689570_POSITIVE 171 153 120 167 136 NC_003454:FN1455|5end_UDP-N-acetylenolpyruvoylglucosamine_reductase_2136519..2136749_NEGATIVE 171 156 113 205 167 NC_003454:FN1627|5end_SSU_ribosomal_protein_S5P_133556..133786_NEGATIVE 170 138 94 56 16 NC_003454:FN1807|5end_hypothetical_protein_289479..289709_NEGATIVE 168 149 113 94 60 NC_003454:FN1286|5end_30S_ribosomal_protein_S13_1944074..1944304_NEGATIVE 168 132 93 38 8 NC_003454:FN0992|5end_ADP-heptose:LPS_heptosyltransferase_II_1646598..1646828_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 199 136 95 61 29 NC_003454:FN0030|3end_5-nitroimidazole_antibiotic_resistance_protein_667676..667826_POSITIVE 197 168 130 59 18 NC_003454:FN1651|3end_Oligopeptide_transport_system_permease_protein_oppB_144876..145026_NEGATIVE 195 155 113 62 19 NC_003454:FN0195|3end_Dipeptide_transport_ATP-binding_protein_dppD_822407..822557_POSITIVE 189 156 117 39 2 NC_003454:FN0071|3end_GTP_cyclohydrolase_I_711605..711755_POSITIVE 179 135 96 81 40 NC_003454:FN0033|3end_hypothetical_protein_670146..670296_NEGATIVE 174 160 120 52 12 NC_003454:FN0491|3end_Alanine_racemase_1136239..1136389_NEGATIVE 170 77 32 88 56 NC_003454:FN1468|3end_Flavoredoxin_2149792..2149942_NEGATIVE 168 132 93 35 5 NC_003454:FN0991|3end_CDP-diacylglycerol--serine_O-phosphatidyltransferase_1646675..1646825_POSITIVE 166 134 97 150 100 NC_003454:FN1008|3end_hypothetical_protein_1662528..1662678_NEGATIVE 164 135 96 95 57 NC_003454:FN1213|3end_hypothetical_protein_1873179..1873329_NEGATIVE 164 127 82 48 5 NC_003454:FN1194|3end_hypothetical_protein_1855668..1855818_POSITIVE 164 50 11 89 39 NC_003454:FN1102|3end_tRNA_2'phosphotransferase_1746571..1746721_POSITIVE 161 53 28 74 49 NC_003454:FN1748|3end_Pyruvate-flavodoxin_oxidoreductase_247559..247709_POSITIVE 159 73 35 134 94 NC_003454:FN2104|3end_hypothetical_protein_614760..614910_POSITIVE 159 157 111 68 9 NC_003454:FN1975|3end_ATP-dependent_RNA_helicase_477265..477415_POSITIVE 158 68 25 85 43 NC_003454:FN0620|3end_hypothetical_protein_1279819..1279969_POSITIVE 158 132 93 86 39 NC_003454:FN0598|3end_Phospholipid-lipopolysaccharide_ABC_transporter_1253712..1253862_POSITIVE 157 141 113 136 99 NC_003454:FN1643|3end_LSU_ribosomal_protein_L23P_139730..139880_NEGATIVE 156 140 95 50 10 NC_003454:FN0235|3end_ABC_transporter_ATP-binding_protein_859674..859824_NEGATIVE 156 176 131 101 49 NC_003454:FN0051|3end_hypothetical_protein_688783..688933_NEGATIVE