Origin IGS: tttatcttttttatagcaaccataaatataaggaaaaacatcattacaaattagaacataaaaagaagcaaaaataaatgaattttcattctaaaatatttttgcttctttcatatgctt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aagcatatgaaagaagcaaaaatattttagaatgaaaattcatttatttttgcttctttttatgttctaatttgtaatgatgtttttccttatatttatggttgctataaaaaagataaa Mask Tandem Repeat Region ================================================ tttatcttttttatagcaaccataaatataaggaaaaacatcattacaaattagaacataaaaagaagcaaaaataaatgaattttcattctaaaatatttttgcttctttcatatgctt Find is-nt database================================================ Query_seq: FN1902:FN1903|FN1902:FN1903:Deoxycytidylate deaminase:Coenzyme A disulfide reductase/ disulfide bond regulator domain:<-<-:390642..390761 120 tttatcttttttatagcaaccataaatataaggaaaaacatcattacaaattagaacataaaaagaagcaaaaataaatgaattttcattctaaaatatttttgcttctttcatatgctt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: FN1902:FN1903|FN1902:FN1903:Deoxycytidylate deaminase:Coenzyme A disulfide reductase/ disulfide bond regulator domain:<-<-:390642..390761 120 tttatcttttttatagcaaccataaatataaggaaaaacatcattacaaattagaacataaaaagaagcaaaaataaatgaattttcattctaaaatatttttgcttctttcatatgctt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: FN1902:FN1903|FN1902:FN1903:Deoxycytidylate deaminase:Coenzyme A disulfide reductase/ disulfide bond regulator domain:<-<-:390642..390761 120 tttatcttttttatagcaaccataaatataaggaaaaacatcattacaaattagaacataaaaagaagcaaaaataaatgaattttcattctaaaatatttttgcttctttcatatgctt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tttatcttttttatagcaaccataaatataaggaaaaacatcattacaaattagaacataaaaagaagcaaaaataaatgaattttcattctaaaatatttttgcttctttcatatgctt Predict ORF larger than 30AA ================================================ tttatcttttttatagcaaccataaatataaggaaaaacatcattacaaattagaacataaaaagaagcaaaaataaatgaattttcattctaaaatatttttgcttctttcatatgctt 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================================================ tttatcttttttatagcaaccataaatataaggaaaaacatcattacaaattagaacataaaaagaagcaaaaataaatgaattttcattctaaaatatttttgcttctttcatatgctt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: FN1902:FN1903|FN1902:FN1903:Deoxycytidylate deaminase:Coenzyme A disulfide reductase/ disulfide bond regulator domain:<-<-:390642..390761 120 tttatcttttttatagcaaccataaatataaggaaaaacatcattacaaattagaacataaaaagaagcaaaaataaatgaattttcattctaaaatatttttgcttctttcatatgctt Intra-Species Hit: Count: 1 Min: 1 Max: 120 Len: 120 Subject: NC_003454_FN1902_FN1903|Deoxycytidylate deaminase:Coenzyme A disulfide reductase/ disulfide bond regulator domain|NEGATIVE:NEGATIVE|[390642,390761]|120 HSP 1 e-value: 3.0E-62 bit: 238.0 Len: 120 Query Start:1 Query End:120 Subject Strand: POSITIVE Subject Start: 1 Subject End: 120 tttatcttttttatagcaaccataaatataaggaaaaacatcattacaaattagaacataaaaagaagcaaaaataaatgaattttcattctaaaatatttttgcttctttcatatgctt tttatcttttttatagcaaccataaatataaggaaaaacatcattacaaattagaacataaaaagaagcaaaaataaatgaattttcattctaaaatatttttgcttctttcatatgctt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUAUCUUUUUUAUAGCAACCAUAAAUAUAAGGAAAAACAUCAUUACAAAUUAGAACAUAAAAAGAAGCAAAAAUAAAUGAAUUUUCAUUCUAAAAUAUUUUUGCUUCUUUCAUAUGCUU ......(((((((((...........))))))))).....................((((.((((((((((((((((((((....)))))......)))))))))))))))..))))... (-21.20) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAGCAUAUGAAAGAAGCAAAAAUAUUUUAGAAUGAAAAUUCAUUUAUUUUUGCUUCUUUUUAUGUUCUAAUUUGUAAUGAUGUUUUUCCUUAUAUUUAUGGUUGCUAUAAAAAAGAUAAA .((((((.((((((((((((((((.....((((....))))...)))))))))))))))))))))).......(((((.(((..(........)..))).)))))............... (-28.90) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 677 60 11 151 102 NC_003454:FN1902|5end_Deoxycytidylate_deaminase_390551..390781_NEGATIVE 202 48 7 53 14 NC_003454:FN0668|5end_High-affinity_zinc_uptake_system_protein_znuA_precursor_1323969..1324199_POSITIVE 195 45 1 138 94 NC_003454:FN0986|5end_phosphoribosylaminoimidazole_synthetase_1638864..1639094_NEGATIVE 193 114 89 126 101 NC_003454:FN1533|5end_Electron_transfer_flavoprotein_alpha-subunit_46321..46551_NEGATIVE 179 71 31 51 8 NC_003454:FN1357|5end_Transposase_2008189..2008419_POSITIVE 179 71 31 51 8 NC_003454:FN0509|5end_Transposase_1160059..1160289_NEGATIVE 179 71 31 51 8 NC_003454:FN1883|5end_Transposase_368863..369093_POSITIVE 178 35 10 218 191 NC_003454:FN1420|5end_NA+/H+_antiporter_NHAC_2081899..2082129_POSITIVE 177 89 47 160 115 NC_003454:FN0774|5end_Hypothetical_cytosolic_protein_1429692..1429922_POSITIVE 177 46 1 45 8 NC_003454:FN1523|5end_Dipeptide-binding_protein_28207..28437_POSITIVE 175 38 4 79 44 NC_003454:FN0861|5end_hypothetical_protein_1521959..1522189_NEGATIVE 174 26 1 46 17 NC_003454:FN0375|5end_Iron(III)-binding_protein_1005293..1005523_POSITIVE 172 117 77 93 50 NC_003454:FN0726|5end_hypothetical_protein_1385265..1385495_NEGATIVE 171 31 1 62 26 NC_003454:FN0231|5end_hypothetical_protein_857351..857581_NEGATIVE 171 31 1 196 160 NC_003454:FN0230|5end_hypothetical_protein_857217..857447_NEGATIVE 170 119 78 134 90 NC_003454:FN0829|5end_hypothetical_protein_1489873..1490103_NEGATIVE 170 112 78 103 64 NC_003454:FN0549|5end_O-sialoglycoprotein_endopeptidase_1201326..1201556_POSITIVE 169 120 89 167 136 NC_003454:FN0293|5end_Hemolysin_activator_protein_precursor_926559..926789_NEGATIVE 169 120 84 226 186 NC_003454:FN0209|5end_Hypothetical_cytosolic_protein_836127..836357_POSITIVE 166 111 75 196 166 NC_003454:FN1490|5end_4-hydroxybenzoate_octaprenyltransferase_2172283..2172513_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 195 45 1 138 94 NC_003454:FN0987|3end_Amidophosphoribosyltransferase_1638864..1639014_NEGATIVE 193 114 89 114 89 NC_003454:FN1534|3end_Electron_transfer_flavoprotein_beta-subunit_46333..46483_NEGATIVE 185 120 71 119 67 NC_003454:FN0248|3end_hypothetical_protein_872568..872718_POSITIVE 178 35 10 71 44 NC_003454:FN1419|3end_methionine_gamma-lyase_2081832..2081982_POSITIVE 172 117 77 51 8 NC_003454:FN0727|3end_hypothetical_protein_1385307..1385457_NEGATIVE 170 112 78 106 67 NC_003454:FN0548|3end_Regulatory_protein_recX_1201409..1201559_POSITIVE 165 114 82 57 31 NC_003454:FN1763|3end_Hypothetical_cytosolic_protein_256008..256158_NEGATIVE 163 119 73 151 100 NC_003454:FN0108|3end_Microcin_C7_self-immunity_protein_mccF_744315..744465_POSITIVE 162 120 82 116 87 NC_003454:FN1685|3end_dTDP-4-dehydrorhamnose_reductase_180135..180285_NEGATIVE 156 120 100 133 112 NC_003454:FN1367|3end_Methyl-accepting_chemotaxis_protein_2017538..2017688_NEGATIVE 156 119 83 138 97 NC_003454:FN1991|3end_Glucosamine-1-phosphate_acetyltransferase_496043..496193_POSITIVE 154 40 1 146 107 NC_003454:FN1345|3end_2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoate_hydrolase_1998130..1998280_NEGATIVE 154 111 74 135 93 NC_003454:FN0738|3end_Hypothetical_exported_24-amino_acid_repeat_protein_1396981..1397131_POSITIVE 149 119 82 97 59 NC_003454:FN1117|3end_LSU_ribosomal_protein_L21P_1760636..1760786_POSITIVE 148 119 79 148 102 NC_003454:FN0695|3end_ABC_transporter_ATP-binding_protein_1353691..1353841_POSITIVE 147 114 83 123 95 NC_003454:FN0942|3end_Sensory_Transduction_Protein_Kinase_1596890..1597040_POSITIVE 147 113 79 127 92 NC_003454:FN1561|3end_Hypothetical_cytosolic_protein_83032..83182_NEGATIVE 146 116 73 77 35 NC_003454:FN1481|3end_Queuine_tRNA-ribosyltransferase_2162679..2162829_NEGATIVE 146 110 75 67 32 NC_003454:FN0931|3end_Phosphohydrolase_(MUTT/NUDIX_family_protein)_1583933..1584083_NEGATIVE 146 119 81 53 15 NC_003454:FN1615|3end_Integral_membrane_protein_125756..125906_POSITIVE