Origin IGS: atagaagtagatagaaaggattaacttttgaagcaggagttaatcttttttttgtatgtagagttgaaaaatgtgcctatatctttaaaataacaataacaggtaggagaataataagctcatataaaaaaactcattttacttttcagtttattatttttctattttaaaatcaataaaagaagaagctattatttcaataacttcttcaatctttataaataaaatt .........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 aattttatttataaagattgaagaagttattgaaataatagcttcttcttttattgattttaaaatagaaaaataataaactgaaaagtaaaatgagtttttttatatgagcttattattctcctacctgttattgttattttaaagatataggcacatttttcaactctacatacaaaaaaaagattaactcctgcttcaaaagttaatcctttctatctacttctat Mask Tandem Repeat Region ================================================ atagaagtagatagaaaggattaacttttgaagcaggagttaatcttttttttgtatgtagagttgaaaaatgtgcctatatctttaaaataacaataacaggtaggagaataataagctcatataaaaaaactcattttacttttcagtttattatttttctattttaaaatcaataaaagaagaagctattatttcaataacttcttcaatctttataaataaaatt Find is-nt database================================================ Query_seq: FN0723:FN0724|FN0723:FN0724:hypothetical protein:flavodoxin:-><-:1383525..1383753 229 atagaagtagatagaaaggattaacttttgaagcaggagttaatcttttttttgtatgtagagttgaaaaatgtgcctatatctttaaaataacaataacaggtaggagaataataagctcatataaaaaaactcattttacttttcagtttattatttttctattttaaaatcaataaaagaagaagctattatttcaataacttcttcaatctttataaataaaatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: FN0723:FN0724|FN0723:FN0724:hypothetical protein:flavodoxin:-><-:1383525..1383753 229 atagaagtagatagaaaggattaacttttgaagcaggagttaatcttttttttgtatgtagagttgaaaaatgtgcctatatctttaaaataacaataacaggtaggagaataataagctcatataaaaaaactcattttacttttcagtttattatttttctattttaaaatcaataaaagaagaagctattatttcaataacttcttcaatctttataaataaaatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: FN0723:FN0724|FN0723:FN0724:hypothetical protein:flavodoxin:-><-:1383525..1383753 229 atagaagtagatagaaaggattaacttttgaagcaggagttaatcttttttttgtatgtagagttgaaaaatgtgcctatatctttaaaataacaataacaggtaggagaataataagctcatataaaaaaactcattttacttttcagtttattatttttctattttaaaatcaataaaagaagaagctattatttcaataacttcttcaatctttataaataaaatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 atagaagtagatagaaaggattaacttttgaagcaggagttaatcttttttttgtatgtagagttgaaaaatgtgcctatatctttaaaataacaataacaggtaggagaataataagctcatataaaaaaactcattttacttttcagtttattatttttctattttaaaatcaataaaagaagaagctattatttcaataacttcttcaatctttataaataaaatt Predict ORF larger than 30AA ================================================ Protein_Len: 33 Strand: + Start: 124 End: 222 ........................................................................................................................... M K K L I L L F S L L F F Y F K I N K R R S Y Y F N N F F N L Y K ....... atagaagtagatagaaaggattaacttttgaagcaggagttaatcttttttttgtatgtagagttgaaaaatgtgcctatatctttaaaataacaataacaggtaggagaataataagctcatataaaaaaactcattttacttttcagtttattatttttctattttaaaatcaataaaagaagaagctattatttcaataacttcttcaatctttataaataaaatt 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================================================ atagaagtagatagaaaggattaacttttgaagcaggagttaatcttttttttgtatgtagagttgaaaaatgtgcctatatctttaaaataacaataacaggtaggagaataataagctcatataaaaaaactcattttacttttcagtttattatttttctattttaaaatcaataaaagaagaagctattatttcaataacttcttcaatctttataaataaaatt Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 44 HP_score: -4.1 Tail_Score: -2.72745 Start: 181 End: 211 Full_Region: TTTAAAATCAATAAA AGAAGAAGCTATT ATTTC AATAACTTCTTCA ATCTTTATAAATAAA ....................................................................................................................................................................................AGAAGAAGCTATTATTTCAATAACTTCTTCA.................. TransTerm Strand: + Conf: 46 HP_score: -3.5 Tail_Score: -3.26719 Start: 185 End: 207 Full_Region: AAATCAATAAAAGAA GAAGCTATT ATTTC AATAACTTC TTCAATCTTTATAAA ........................................................................................................................................................................................GAAGCTATTATTTCAATAACTTC...................... Find igs database================================================ Query_seq: FN0723:FN0724|FN0723:FN0724:hypothetical protein:flavodoxin:-><-:1383525..1383753 229 atagaagtagatagaaaggattaacttttgaagcaggagttaatcttttttttgtatgtagagttgaaaaatgtgcctatatctttaaaataacaataacaggtaggagaataataagctcatataaaaaaactcattttacttttcagtttattatttttctattttaaaatcaataaaagaagaagctattatttcaataacttcttcaatctttataaataaaatt Intra-Species Hit: Count: 1 Min: 1 Max: 229 Len: 229 Subject: NC_003454_FN0723_FN0724|hypothetical protein:flavodoxin|POSITIVE:NEGATIVE|[1383525, 1383753]|229 HSP 1 e-value: 1.0E-100 bit: 365.0 Len: 229 Query Start:1 Query End:229 Subject Strand: POSITIVE Subject Start: 1 Subject End: 229 atagaagtagatagaaaggattaacttttgaagcaggagttaatcnnnnnnnngtatgtagagttgaaaaatgtgcctatatctttaaaataacaataacaggtaggagaataataagctcatatnnnnnnnctcattttacttttcagtttattatttttctattttaaaatcaataaaagaagaagctattatttcaataacttcttcaatctttataaataaaatt atagaagtagatagaaaggattaacttttgaagcaggagttaatcttttttttgtatgtagagttgaaaaatgtgcctatatctttaaaataacaataacaggtaggagaataataagctcatataaaaaaactcattttacttttcagtttattatttttctattttaaaatcaataaaagaagaagctattatttcaataacttcttcaatctttataaataaaatt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUAGAAGUAGAUAGAAAGGAUUAACUUUUGAAGCAGGAGUUAAUCUUUUUUUUGUAUGUAGAGUUGAAAAAUGUGCCUAUAUCUUUAAAAUAACAAUAACAGGUAGGAGAAUAAUAAGCUCAUAUAAAAAAACUCAUUUUACUUUUCAGUUUAUUAUUUUUCUAUUUUAAAAUCAAUAAAAGAAGAAGCUAUUAUUUCAAUAACUUCUUCAAUCUUUAUAAAUAAAAUU .............(((((((((((((((((...)))))))))))))))))(((((.(((((((((((....(((..................))).....((((((((((((((((((((....(((((.......)))))......)))))))))))))))))))).....)))).....(((((((.((((.....)))).)))))))...))))))).)))))... (-48.27) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAUUUUAUUUAUAAAGAUUGAAGAAGUUAUUGAAAUAAUAGCUUCUUCUUUUAUUGAUUUUAAAAUAGAAAAAUAAUAAACUGAAAAGUAAAAUGAGUUUUUUUAUAUGAGCUUAUUAUUCUCCUACCUGUUAUUGUUAUUUUAAAGAUAUAGGCACAUUUUUCAACUCUACAUACAAAAAAAAGAUUAACUCCUGCUUCAAAAGUUAAUCCUUUCUAUCUACUUCUAU .......((((((..((..(((((((((((((...)))))))))))))..)).....(((((((((((...(((((((.(((....)))..(((((((((........)))))))))...........))))))).))))))))))).))))))..............................((((((((..((...))..)))))))).................. (-39.40) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 348 56 11 165 116 NC_003454:FN1997|5end_Transcriptional_regulator_499758..499988_POSITIVE 327 48 13 204 165 NC_003454:FN0864|5end_hypothetical_protein_1522900..1523130_NEGATIVE 327 50 13 201 163 NC_003454:FN0496|5end_hypothetical_protein_1140910..1141140_POSITIVE 268 55 16 173 127 NC_003454:FN1530|5end_Transposase_43625..43855_POSITIVE 248 44 13 231 196 NC_003454:FN1844|5end_Ketoacyl_reductase_hetN_333593..333823_POSITIVE 241 99 57 60 11 NC_003454:FN0482|5end_LSU_ribosomal_protein_L31P_1128295..1128525_POSITIVE 240 51 12 206 166 NC_003454:FN0733|5end_peptidase_T_1389564..1389794_POSITIVE 224 211 174 202 156 NC_003454:FN0052|5end_Arsenate_reductase_688849..689079_POSITIVE 219 217 175 223 179 NC_003454:FN1221|5end_hypothetical_protein_1880344..1880574_POSITIVE 210 83 45 177 140 NC_003454:FN0958|5end_hypothetical_protein_1614297..1614527_NEGATIVE 209 176 135 69 35 NC_003454:FN2036|5end_DNA-directed_RNA_polymerase_beta_chain_546371..546601_NEGATIVE 208 169 121 134 85 NC_003454:FN0845|5end_hypothetical_protein_1503935..1504165_POSITIVE 207 85 49 153 115 NC_003454:FN0850|5end_Hypothetical_cytosolic_protein_1508913..1509143_POSITIVE 207 95 57 216 173 NC_003454:FN0069|5end_glycyl-tRNA_synthetase_alpha_subunit_707809..708039_POSITIVE 205 189 141 184 134 NC_003454:FN0909|5end_DNA_repair_protein_radC_1567654..1567884_NEGATIVE 203 150 102 92 48 NC_003454:FN0858|5end_4-alpha-glucanotransferase_1520507..1520737_NEGATIVE 201 109 74 45 8 NC_003454:FN1085|5end_4-methyl-5(B-hydroxyethyl)-thiazole_monophosphate_biosynthesis_enzyme_1728934..1729164_POSITIVE 197 177 134 120 75 NC_003454:FN1551|5end_hypothetical_protein_66187..66417_NEGATIVE 196 159 116 101 57 NC_003454:FN1539|5end_Iron-sulfur_cluster-binding_protein_52461..52691_POSITIVE 192 74 33 230 184 NC_003454:FN0541|5end_Hypothetical_cytosolic_protein_1194162..1194392_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 377 50 16 142 104 NC_003454:FN1447|3end_Transposase_2117342..2117492_POSITIVE 377 50 16 142 104 NC_003454:FN0841|3end_Transposase_1502804..1502954_POSITIVE 377 50 16 142 104 NC_003454:FN0486|3end_Transposase_1131710..1131860_POSITIVE 377 50 16 142 104 NC_003454:FN0139|3end_Transposase_771640..771790_POSITIVE 377 50 16 142 104 NC_003454:FN1889|3end_Transposase_373027..373177_POSITIVE 348 56 11 69 20 NC_003454:FN1996|3end_Transporter_499742..499892_POSITIVE 327 48 13 64 25 NC_003454:FN0865|3end_hypothetical_protein_1523040..1523190_NEGATIVE 327 50 13 66 28 NC_003454:FN0495|3end_Acetyl-CoA_acetyltransferase_1140855..1141005_POSITIVE 323 51 13 78 40 NC_003454:FN0723|3end_hypothetical_protein_1383464..1383614_POSITIVE 322 50 16 142 104 NC_003454:FN1442|3end_Transposase_2110155..2110305_NEGATIVE 322 50 16 142 104 NC_003454:FN0787|3end_Transposase_1443908..1444058_POSITIVE 316 50 1 79 25 NC_003454:FN1235|3end_Ankyrin_repeat_proteins_1892428..1892578_POSITIVE 308 64 25 41 1 NC_003454:FN1800|3end_Peptidyl-prolyl_cis-trans_isomerase_282534..282684_POSITIVE 303 50 16 142 104 NC_003454:FN1680|3end_Transposase_175971..176121_NEGATIVE 293 51 12 61 19 NC_003454:FN1801|3end_Sodium/glutamate_symport_carrier_protein_282636..282786_NEGATIVE 264 50 30 23 3 NC_003454:FN1530|3end_Transposase_44061..44211_POSITIVE 257 50 1 83 36 NC_003454:FN0471|3end_Cell_surface_protein_1117627..1117777_POSITIVE 246 48 18 35 1 NC_003454:FN0209|3end_Hypothetical_cytosolic_protein_836800..836950_POSITIVE 240 51 12 102 62 NC_003454:FN0732|3end_hypothetical_protein_1389540..1389690_POSITIVE 233 53 12 64 18 NC_003454:FN2105|3end_Integral_membrane_protein_616265..616415_POSITIVE