Origin IGS: aaactagtttaagaaagctatgtagattgaaaaatatttatatagctttttctaatttataagaattatcaagaaattcttaactgtttacatttaaaaaaaaatagtatataattaaaaaacgtatgtaattttatttaaaaaataaatttttaagaactttatgatataataagctgatatagaatgaaaattatatggagggtataaa .........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 tttataccctccatataattttcattctatatcagcttattatatcataaagttcttaaaaatttattttttaaataaaattacatacgttttttaattatatactatttttttttaaatgtaaacagttaagaatttcttgataattcttataaattagaaaaagctatataaatatttttcaatctacatagctttcttaaactagttt Mask Tandem Repeat Region ================================================ aaactagtttaagaaagctatgtagattgaaaaatatttatatagctttttctaatttataagaattatcaagaaattcttaactgtttacatttaaaaaaaaatagtatataattaaaaaacgtatgtaattttatttaaaaaataaatttttaagaactttatgatataataagctgatatagaatgaaaattatatggagggtataaa Find is-nt database================================================ Query_seq: FN0146:FN0147|FN0146:FN0147:hypothetical protein:fatty acid/phospholipid synthesis protein:->->:775391..775601 211 aaactagtttaagaaagctatgtagattgaaaaatatttatatagctttttctaatttataagaattatcaagaaattcttaactgtttacatttaaaaaaaaatagtatataattaaaaaacgtatgtaattttatttaaaaaataaatttttaagaactttatgatataataagctgatatagaatgaaaattatatggagggtataaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: FN0146:FN0147|FN0146:FN0147:hypothetical protein:fatty acid/phospholipid synthesis protein:->->:775391..775601 211 aaactagtttaagaaagctatgtagattgaaaaatatttatatagctttttctaatttataagaattatcaagaaattcttaactgtttacatttaaaaaaaaatagtatataattaaaaaacgtatgtaattttatttaaaaaataaatttttaagaactttatgatataataagctgatatagaatgaaaattatatggagggtataaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: FN0146:FN0147|FN0146:FN0147:hypothetical protein:fatty acid/phospholipid synthesis protein:->->:775391..775601 211 aaactagtttaagaaagctatgtagattgaaaaatatttatatagctttttctaatttataagaattatcaagaaattcttaactgtttacatttaaaaaaaaatagtatataattaaaaaacgtatgtaattttatttaaaaaataaatttttaagaactttatgatataataagctgatatagaatgaaaattatatggagggtataaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aaactagtttaagaaagctatgtagattgaaaaatatttatatagctttttctaatttataagaattatcaagaaattcttaactgtttacatttaaaaaaaaatagtatataattaaaaaacgtatgtaattttatttaaaaaataaatttttaagaactttatgatataataagctgatatagaatgaaaattatatggagggtataaa Predict ORF larger than 30AA ================================================ aaactagtttaagaaagctatgtagattgaaaaatatttatatagctttttctaatttataagaattatcaagaaattcttaactgtttacatttaaaaaaaaatagtatataattaaaaaacgtatgtaattttatttaaaaaataaatttttaagaactttatgatataataagctgatatagaatgaaaattatatggagggtataaa 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: 87 Start: 86 End: 115 .....................................................................................GTTTACATTTAAAAAAAAATAGTATATAAT................................................................................................ Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ aaactagtttaagaaagctatgtagattgaaaaatatttatatagctttttctaatttataagaattatcaagaaattcttaactgtttacatttaaaaaaaaatagtatataattaaaaaacgtatgtaattttatttaaaaaataaatttttaagaactttatgatataataagctgatatagaatgaaaattatatggagggtataaa Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 41 HP_score: -3.6 Tail_Score: -2.52464 Start: 60 End: 82 Full_Region: ttaaatgtaaacagt taagaatt tcttgat aattctta taaattagaaaaagc ...........................................................taagaatttcttgataattctta................................................................................................................................. Find igs database================================================ Query_seq: FN0146:FN0147|FN0146:FN0147:hypothetical protein:fatty acid/phospholipid synthesis protein:->->:775391..775601 211 aaactagtttaagaaagctatgtagattgaaaaatatttatatagctttttctaatttataagaattatcaagaaattcttaactgtttacatttaaaaaaaaatagtatataattaaaaaacgtatgtaattttatttaaaaaataaatttttaagaactttatgatataataagctgatatagaatgaaaattatatggagggtataaa Intra-Species Hit: Count: 1 Min: 1 Max: 211 Len: 211 Subject: NC_003454_FN0146_FN0147|hypothetical protein:fatty acid/phospholipid synthesis protein|POSITIVE:POSITIVE|[775391,775601]|211 HSP 1 e-value: 5.0E-47 bit: 188.0 Len: 95 Query Start:1 Query End:95 Subject Strand: POSITIVE Subject Start: 1 Subject End: 95 aaactagtttaagaaagctatgtagattgaaaaatatttatatagctttttctaatttataagaattatcaagaaattcttaactgtttacattt.................................................................................................................... aaactagtttaagaaagctatgtagattgaaaaatatttatatagctttttctaatttataagaattatcaagaaattcttaactgtttacattt.................................................................................................................... HSP 2 e-value: 8.0E-12 bit: 71.9 Len: 36 Query Start:176 Query End:211 Subject Strand: POSITIVE Subject Start: 176 Subject End: 211 ...............................................................................................................................................................................gctgatatagaatgaaaattatatggagggtataaa ...............................................................................................................................................................................gctgatatagaatgaaaattatatggagggtataaa Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAACUAGUUUAAGAAAGCUAUGUAGAUUGAAAAAUAUUUAUAUAGCUUUUUCUAAUUUAUAAGAAUUAUCAAGAAAUUCUUAACUGUUUACAUUUAAAAAAAAAUAGUAUAUAAUUAAAAAACGUAUGUAAUUUUAUUUAAAAAAUAAAUUUUUAAGAACUUUAUGAUAUAAUAAGCUGAUAUAGAAUGAAAAUUAUAUGGAGGGUAUAAA .....((((..((((((((((((((((........))))))))))))))))..)))).........(((((.(((.(((((((..(((((..(((.(((.(((((..(((((...........)))))..))))).))).)))..)))))..))))))).))).))))).......((..((((.(((....))).))))..))....... (-37.00) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUAUACCCUCCAUAUAAUUUUCAUUCUAUAUCAGCUUAUUAUAUCAUAAAGUUCUUAAAAAUUUAUUUUUUAAAUAAAAUUACAUACGUUUUUUAAUUAUAUACUAUUUUUUUUUAAAUGUAAACAGUUAAGAAUUUCUUGAUAAUUCUUAUAAAUUAGAAAAAGCUAUAUAAAUAUUUUUCAAUCUACAUAGCUUUCUUAAACUAGUUU ...........................(((((.(((((....(((((..((((((((((...(((((..((((((.((((............................)))).)))))).)))))...))))))))))..))))).((((........)))).))))))))))...................................... (-24.49) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 234 120 71 130 78 NC_003454:FN1707|5end_Aldose_1-epimerase_202181..202411_POSITIVE 190 47 6 181 151 NC_003454:FN1926|5end_Nitrogen_regulatory_IIA_protein_425287..425517_NEGATIVE 187 204 161 186 136 NC_003454:FN0896|5end_hypothetical_protein_1555780..1556010_NEGATIVE 187 60 11 193 149 NC_003454:FN0462|5end_DNA_mismatch_repair_protein_mutL_1107184..1107414_POSITIVE 186 112 71 149 106 NC_003454:FN1357|5end_Transposase_2008189..2008419_POSITIVE 186 112 71 149 106 NC_003454:FN0509|5end_Transposase_1160059..1160289_NEGATIVE 186 112 71 149 106 NC_003454:FN1883|5end_Transposase_368863..369093_POSITIVE 186 50 1 98 39 NC_003454:FN1497|5end_Multidrug_resistance_protein_2_2138..2368_NEGATIVE 185 70 35 182 152 NC_003454:FN0135|5end_Transposase_770238..770468_POSITIVE 179 112 71 150 106 NC_003454:FN0140|5end_Transposase_772997..773227_NEGATIVE 179 58 11 216 172 NC_003454:FN1949|5end_Xaa-Pro_dipeptidase_454922..455152_NEGATIVE 179 112 71 150 106 NC_003454:FN1676|5end_Transposase_172739..172969_POSITIVE 178 50 24 220 192 NC_003454:FN0691|5end_hypothetical_protein_1346372..1346602_NEGATIVE 175 190 156 67 36 NC_003454:FN0538|5end_Protein_translocase_subunit_secG_1191847..1192077_POSITIVE 172 85 46 49 4 NC_003454:FN0069|5end_glycyl-tRNA_synthetase_alpha_subunit_707809..708039_POSITIVE 172 181 149 201 169 NC_003454:FN2109|5end_UDP-glucose_4-epimerase_620848..621078_POSITIVE 169 204 163 227 192 NC_003454:FN1825|5end_hypothetical_protein_313994..314224_POSITIVE 167 88 46 213 169 NC_003454:FN0145|5end_hypothetical_protein_774306..774536_POSITIVE 166 81 44 103 64 NC_003454:FN0216|5end_3-oxoacyl-[acyl-carrier_protein]_reductase_840864..841094_NEGATIVE 164 58 21 151 110 NC_003454:FN1071|5end_Integrase/recombinase_1718432..1718662_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 234 120 71 146 94 NC_003454:FN1706|3end_Transporter_202277..202427_POSITIVE 233 51 12 79 40 NC_003454:FN0146|3end_hypothetical_protein_775330..775480_POSITIVE 206 54 11 71 29 NC_003454:FN0662|3end_Formiminoglutamase_1319188..1319338_POSITIVE 204 51 11 84 32 NC_003454:FN1364|3end_LSU_ribosomal_protein_L32P_2015382..2015532_NEGATIVE 190 47 6 53 23 NC_003454:FN1927|3end_DEGV_protein_425415..425565_NEGATIVE 187 60 11 76 32 NC_003454:FN0461|3end_Probable_sigma(54)_modulation_protein_1107147..1107297_POSITIVE 184 59 11 101 46 NC_003454:FN0691|3end_hypothetical_protein_1345827..1345977_NEGATIVE 179 58 11 75 31 NC_003454:FN1950|3end_Serine_protease_455063..455213_NEGATIVE 178 51 12 85 42 NC_003454:FN0257|3end_Transporter_884107..884257_POSITIVE 171 112 81 40 6 NC_003454:FN1356|3end_hypothetical_protein_2008160..2008310_POSITIVE 171 112 81 40 6 NC_003454:FN0510|3end_hypothetical_protein_1160168..1160318_NEGATIVE 171 59 14 139 87 NC_003454:FN1912|3end_hypothetical_protein_405418..405568_NEGATIVE 171 112 81 40 6 NC_003454:FN1882|3end_hypothetical_protein_368834..368984_POSITIVE 167 88 46 61 17 NC_003454:FN0143|3end_hypothetical_protein_774234..774384_POSITIVE 167 49 2 84 46 NC_003454:FN2001|3end_hypothetical_protein_501298..501448_NEGATIVE 167 60 11 104 60 NC_003454:FN1497|3end_Multidrug_resistance_protein_2_1014..1164_NEGATIVE 164 58 21 144 103 NC_003454:FN1070|3end_glucose-inhibited_division_protein_A_1718505..1718655_POSITIVE 164 54 11 89 54 NC_003454:FN0039|3end_DNA_primase_(bacterial_type)_and_small_primase-like_proteins_678661..678811_NEGATIVE 162 197 158 87 47 NC_003454:FN1039|3end_Branched-chain_amino_acid_transport_protein_azlC_1691829..1691979_POSITIVE 154 60 34 59 31 NC_003454:FN1333|3end_hypothetical_protein_1987164..1987314_NEGATIVE