Origin IGS: actcagattaaaagtttttaagctgtacctataaatgaatatgaaattgaaacataattttggataaattaataaaaagtaagaaagctattacaaatcaattagaaatgtaatagcttttttat .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 ataaaaaagctattacatttctaattgatttgtaatagctttcttactttttattaatttatccaaaattatgtttcaatttcatattcatttataggtacagcttaaaaacttttaatctgagt Mask Tandem Repeat Region ================================================ actcagattaaaagtttttaagctgtacctataaatgaatatgaaattgaaacataattttggataaattaataaaaagtaagaaagctattacaaatcaattagaaatgtaatagcttttttat Find is-nt database================================================ Query_seq: FN0690:FN0691|FN0690:FN0691:hypothetical protein:hypothetical protein:-><-:1345792..1345916 125 actcagattaaaagtttttaagctgtacctataaatgaatatgaaattgaaacataattttggataaattaataaaaagtaagaaagctattacaaatcaattagaaatgtaatagcttttttat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: FN0690:FN0691|FN0690:FN0691:hypothetical protein:hypothetical protein:-><-:1345792..1345916 125 actcagattaaaagtttttaagctgtacctataaatgaatatgaaattgaaacataattttggataaattaataaaaagtaagaaagctattacaaatcaattagaaatgtaatagcttttttat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: FN0690:FN0691|FN0690:FN0691:hypothetical protein:hypothetical protein:-><-:1345792..1345916 125 actcagattaaaagtttttaagctgtacctataaatgaatatgaaattgaaacataattttggataaattaataaaaagtaagaaagctattacaaatcaattagaaatgtaatagcttttttat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 actcagattaaaagtttttaagctgtacctataaatgaatatgaaattgaaacataattttggataaattaataaaaagtaagaaagctattacaaatcaattagaaatgtaatagcttttttat Predict ORF larger than 30AA ================================================ actcagattaaaagtttttaagctgtacctataaatgaatatgaaattgaaacataattttggataaattaataaaaagtaagaaagctattacaaatcaattagaaatgtaatagcttttttat 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================================================ actcagattaaaagtttttaagctgtacctataaatgaatatgaaattgaaacataattttggataaattaataaaaagtaagaaagctattacaaatcaattagaaatgtaatagcttttttat Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 44 HP_score: -2.4 Tail_Score: -3.51904 Start: 55 End: 71 Full_Region: tttcttactttttat taattt atcca aaatta tgtttcaatttcata ......................................................taatttatccaaaatta...................................................... Find igs database================================================ Query_seq: FN0690:FN0691|FN0690:FN0691:hypothetical protein:hypothetical protein:-><-:1345792..1345916 125 actcagattaaaagtttttaagctgtacctataaatgaatatgaaattgaaacataattttggataaattaataaaaagtaagaaagctattacaaatcaattagaaatgtaatagcttttttat Intra-Species Hit: Count: 1 Min: 1 Max: 125 Len: 125 Subject: NC_003454_FN0690_FN0691|hypothetical protein:hypothetical protein|POSITIVE:NEGATIVE|[1345792,1345916]|125 HSP 1 e-value: 4.0E-65 bit: 248.0 Len: 125 Query Start:1 Query End:125 Subject Strand: POSITIVE Subject Start: 1 Subject End: 125 actcagattaaaagtttttaagctgtacctataaatgaatatgaaattgaaacataattttggataaattaataaaaagtaagaaagctattacaaatcaattagaaatgtaatagcttttttat actcagattaaaagtttttaagctgtacctataaatgaatatgaaattgaaacataattttggataaattaataaaaagtaagaaagctattacaaatcaattagaaatgtaatagcttttttat Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ ACUCAGAUUAAAAGUUUUUAAGCUGUACCUAUAAAUGAAUAUGAAAUUGAAACAUAAUUUUGGAUAAAUUAAUAAAAAGUAAGAAAGCUAUUACAAAUCAAUUAGAAAUGUAAUAGCUUUUUUAU ...(((.(((((....))))).)))....(((.(((.....((((((((.....)))))))).....))).)))....(((((((((((((((((..((.....))..))))))))))))))))) (-23.00) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUAAAAAAGCUAUUACAUUUCUAAUUGAUUUGUAAUAGCUUUCUUACUUUUUAUUAAUUUAUCCAAAAUUAUGUUUCAAUUUCAUAUUCAUUUAUAGGUACAGCUUAAAAACUUUUAAUCUGAGU .(((.((((((((((((..((.....))..)))))))))))).)))..........((((((.......((((.........)))).......)))))).(((.(((((....))))).)))... (-21.64) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 235 118 73 209 168 NC_003454:FN1926|5end_Nitrogen_regulatory_IIA_protein_425287..425517_NEGATIVE 203 90 42 196 149 NC_003454:FN1217|5end_Holliday_junction_DNA_helicase_ruvB_1877597..1877827_NEGATIVE 192 118 75 227 188 NC_003454:FN0165|5end_hypothetical_protein_793491..793721_POSITIVE 187 120 77 152 98 NC_003454:FN1002|5end_Adenosylmethionine-8-amino-7-oxononanoate_aminotransferase_1656738..1656968_POSITIVE 181 70 24 172 133 NC_003454:FN0876|5end_Gamma-glutamyltranspeptidase_1537506..1537736_NEGATIVE 179 120 77 222 185 NC_003454:FN0093|5end_Thioredoxin_729169..729399_POSITIVE 179 120 73 169 119 NC_003454:FN2104|5end_hypothetical_protein_614237..614467_POSITIVE 178 47 23 136 112 NC_003454:FN2123|5end_Phenylalanyl-tRNA_synthetase_alpha_chain_633224..633454_NEGATIVE 177 47 1 172 131 NC_003454:FN0130|5end_ABC_transporter_ATP-binding_protein_758586..758816_POSITIVE 176 98 56 151 111 NC_003454:FN0352|5end_NA+/H+_antiporter_NHAC_983541..983771_POSITIVE 173 117 74 231 191 NC_003454:FN0512|5end_Flavoprotein_1162597..1162827_NEGATIVE 172 42 2 228 186 NC_003454:FN0887|5end_Oligoendopeptidase_F_1549711..1549941_NEGATIVE 172 93 77 36 20 NC_003454:FN0309|5end_Iron(III)-transport_system_permease_protein_sfuB_944099..944329_POSITIVE 169 119 76 181 142 NC_003454:FN1257|5end_C4-dicarboxylate_transporter_small_subunit_1913664..1913894_NEGATIVE 166 38 22 65 48 NC_003454:FN1192|5end_hypothetical_protein_1854679..1854909_POSITIVE 166 46 1 48 3 NC_003454:FN0514|5end_hypothetical_protein_1163431..1163661_POSITIVE 163 109 61 58 12 NC_003454:FN1503|5end_Nickel_transport_system_permease_protein_nikB_8441..8671_NEGATIVE 162 118 76 192 156 NC_003454:FN0300|5end_Iron(III)_dicitrate-binding_protein_934679..934909_POSITIVE 160 118 73 56 17 NC_003454:FN1335|5end_Protein_translocase_subunit_YajC_1989011..1989241_NEGATIVE 160 120 77 183 146 NC_003454:FN0462|5end_DNA_mismatch_repair_protein_mutL_1107184..1107414_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 286 120 72 80 31 NC_003454:FN0636|3end_hypothetical_protein_1295609..1295759_POSITIVE 278 119 77 61 4 NC_003454:FN0371|3end_hypothetical_protein_1000840..1000990_POSITIVE 255 117 77 82 27 NC_003454:FN1340|3end_Glutamyl-tRNA_synthetase_1993353..1993503_NEGATIVE 255 117 77 63 8 NC_003454:FN0528|3end_Cold_shock_protein_1184746..1184896_POSITIVE 254 120 76 84 41 NC_003454:FN1276|3end_hypothetical_protein_1935280..1935430_POSITIVE 235 118 73 81 40 NC_003454:FN1927|3end_DEGV_protein_425415..425565_NEGATIVE 233 116 75 82 44 NC_003454:FN0853|3end_Glycogen_synthase_1510922..1511072_NEGATIVE 218 120 87 83 48 NC_003454:FN0637|3end_Hypothetical_exported_24-amino_acid_repeat_protein_1295636..1295786_NEGATIVE 210 120 74 63 20 NC_003454:FN0513|3end_Flavodoxin_1162768..1162918_NEGATIVE 208 118 80 77 41 NC_003454:FN0059|3end_NifU_protein_695619..695769_POSITIVE 206 120 73 81 41 NC_003454:FN1005|3end_hypothetical_protein_1660975..1661125_POSITIVE 202 120 71 81 36 NC_003454:FN0276|3end_Sodium-dependent_phosphate_transporter_901746..901896_NEGATIVE 199 119 74 67 15 NC_003454:FN1807|3end_hypothetical_protein_288685..288835_NEGATIVE 187 120 77 84 30 NC_003454:FN1001|3end_Dethiobiotin_synthetase_1656750..1656900_POSITIVE 182 120 80 79 44 NC_003454:FN1006|3end_Acetyltransferase_1660998..1661148_NEGATIVE 179 120 77 79 42 NC_003454:FN0092|3end_NADPH-dependent_butanol_dehydrogenase_729106..729256_POSITIVE 179 120 73 61 11 NC_003454:FN2103|3end_RecA_protein_614209..614359_POSITIVE 178 47 23 109 85 NC_003454:FN2124|3end_Hypothetical_protein_with_Metallo-phosphoesterase_motif_633251..633401_NEGATIVE 178 119 78 48 12 NC_003454:FN1984|3end_Glutaredoxin-like_protein_487204..487354_POSITIVE 177 89 41 61 19 NC_003454:FN2064|3end_hypothetical_protein_575213..575363_NEGATIVE