Origin IGS: tgagataagtttgttagtaatttatatttaaaaatatataaaaaatagttataaggttgggttgaggctcaatcttatactatttataaaaaaatttaggagggattttt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aaaaatccctcctaaatttttttataaatagtataagattgagcctcaacccaaccttataactattttttatatatttttaaatataaattactaacaaacttatctca Mask Tandem Repeat Region ================================================ tgagataagtttgttagtaatttatatttaaaaatatataaaaaatagttataaggttgggttgaggctcaatcttatactatttataaaaaaatttaggagggattttt Find is-nt database================================================ Query_seq: FN0201:FN0202|FN0201:FN0202:Glutaconyl-COA decarboxylase beta subunit:Glutaconate CoA-transferase subunit A:->->:827810..827919 110 tgagataagtttgttagtaatttatatttaaaaatatataaaaaatagttataaggttgggttgaggctcaatcttatactatttataaaaaaatttaggagggattttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: FN0201:FN0202|FN0201:FN0202:Glutaconyl-COA decarboxylase beta subunit:Glutaconate CoA-transferase subunit A:->->:827810..827919 110 tgagataagtttgttagtaatttatatttaaaaatatataaaaaatagttataaggttgggttgaggctcaatcttatactatttataaaaaaatttaggagggattttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: FN0201:FN0202|FN0201:FN0202:Glutaconyl-COA decarboxylase beta subunit:Glutaconate CoA-transferase subunit A:->->:827810..827919 110 tgagataagtttgttagtaatttatatttaaaaatatataaaaaatagttataaggttgggttgaggctcaatcttatactatttataaaaaaatttaggagggattttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgagataagtttgttagtaatttatatttaaaaatatataaaaaatagttataaggttgggttgaggctcaatcttatactatttataaaaaaatttaggagggattttt Predict ORF larger than 30AA ================================================ tgagataagtttgttagtaatttatatttaaaaatatataaaaaatagttataaggttgggttgaggctcaatcttatactatttataaaaaaatttaggagggattttt 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================================================ tgagataagtttgttagtaatttatatttaaaaatatataaaaaatagttataaggttgggttgaggctcaatcttatactatttataaaaaaatttaggagggattttt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: FN0201:FN0202|FN0201:FN0202:Glutaconyl-COA decarboxylase beta subunit:Glutaconate CoA-transferase subunit A:->->:827810..827919 110 tgagataagtttgttagtaatttatatttaaaaatatataaaaaatagttataaggttgggttgaggctcaatcttatactatttataaaaaaatttaggagggattttt Intra-Species Hit: Count: 1 Min: 1 Max: 110 Len: 110 Subject: NC_003454_FN0201_FN0202|Glutaconyl-COA decarboxylase beta subunit:Glutaconate CoA-transferase subunit A|POSITIVE:POSITIVE|[827810,827919]|110 HSP 1 e-value: 9.0E-44 bit: 176.0 Len: 110 Query Start:1 Query End:110 Subject Strand: POSITIVE Subject Start: 1 Subject End: 110 tgagataagtttgttagtaatttatatttaaaaatatataaaaaatagttataaggttgggttgaggctcaatcttatactatttatnnnnnnntttaggagggattttt tgagataagtttgttagtaatttatatttaaaaatatataaaaaatagttataaggttgggttgaggctcaatcttatactatttataaaaaaatttaggagggattttt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAGAUAAGUUUGUUAGUAAUUUAUAUUUAAAAAUAUAUAAAAAAUAGUUAUAAGGUUGGGUUGAGGCUCAAUCUUAUACUAUUUAUAAAAAAAUUUAGGAGGGAUUUUU .....(((((((........(((((((........)))))))(((((((.((((((((((((....)))))))))))))))))))......)))))))............ (-22.70) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAAAAUCCCUCCUAAAUUUUUUUAUAAAUAGUAUAAGAUUGAGCCUCAACCCAACCUUAUAACUAUUUUUUAUAUAUUUUUAAAUAUAAAUUACUAACAAACUUAUCUCA .........................((((((((((((.(((.(......).))).))))).)))))))(((((((........))))))).................... (-10.00) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 227 109 65 194 147 NC_003454:FN0930|5end_Glycerol-3-phosphate_cytidylyltransferase_1583964..1584194_NEGATIVE 183 78 38 168 128 NC_003454:FN1869|5end_hypothetical_protein_360839..361069_NEGATIVE 174 76 54 188 162 NC_003454:FN1759|5end_Hydroxymethylpyrimidine_kinase_254765..254995_NEGATIVE 173 61 39 185 160 NC_003454:FN1659|5end_hypothetical_protein_155036..155266_POSITIVE 168 85 48 99 59 NC_003454:FN0982|5end_bifunctional_phosphoribosylaminoimidazolecarboxamide_formyltransferase/IMP_cyclohydrolase_1635651..1635881_NEGATIVE 167 85 48 151 116 NC_003454:FN1887|5end_Transposase_371671..371901_POSITIVE 165 92 54 216 175 NC_003454:FN1199|5end_DNA_polymerase_IV_1859061..1859291_POSITIVE 160 75 52 65 39 NC_003454:FN1418|5end_AMINOTRANSFERASE_CLASS-I_2080500..2080730_NEGATIVE 158 85 57 46 19 NC_003454:FN2011|5end_Valyl-tRNA_synthetase_513096..513326_NEGATIVE 157 69 24 86 39 NC_003454:FN1256|5end_C4-dicarboxylate_transporter_large_subunit_1913206..1913436_NEGATIVE 151 78 37 180 140 NC_003454:FN1198|5end_Transporter_1858941..1859171_NEGATIVE 151 81 42 173 128 NC_003454:FN0728|5end_hypothetical_protein_1386120..1386350_NEGATIVE 151 65 32 185 149 NC_003454:FN0308|5end_Iron(III)-binding_protein_943022..943252_POSITIVE 149 87 56 91 64 NC_003454:FN0084|5end_Acetaldehyde_dehydrogenase_[acetylating]_721572..721802_POSITIVE 148 70 23 180 132 NC_003454:FN2091|5end_hypothetical_protein_602481..602711_NEGATIVE 147 58 11 198 146 NC_003454:FN1422|5end_NA+/H+_antiporter_NHAC_2088426..2088656_NEGATIVE 146 69 41 226 190 NC_003454:FN1802|5end_hypothetical_protein_283948..284178_POSITIVE 144 108 83 44 14 NC_003454:FN1425|5end_hypothetical_protein_2091911..2092141_POSITIVE 144 85 56 215 178 NC_003454:FN0525|5end_Penicillin-binding_protein_1181840..1182070_NEGATIVE 143 85 45 202 169 NC_003454:FN1310|5end_TonB_protein_1965876..1966106_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 296 85 43 48 6 NC_003454:FN0201|3end_Glutaconyl-COA_decarboxylase_beta_subunit_827749..827899_POSITIVE 193 90 41 98 40 NC_003454:FN0721|3end_hypothetical_protein_1377633..1377783_NEGATIVE 189 69 24 65 21 NC_003454:FN1986|3end_hypothetical_protein_490007..490157_POSITIVE 175 83 49 65 33 NC_003454:FN1525|3end_Dipeptide_transport_ATP-binding_protein_dppF_31631..31781_POSITIVE 172 78 33 86 47 NC_003454:FN1149|3end_ATP-dependent_nuclease_subunit_A_1799277..1799427_NEGATIVE 168 85 48 73 33 NC_003454:FN0983|3end_hypothetical_protein_1635677..1635827_NEGATIVE 166 110 76 116 83 NC_003454:FN0318|3end_CITX_protein_955285..955435_NEGATIVE 161 109 83 66 38 NC_003454:FN1655|3end_Hypothetical_cytosolic_protein_152516..152666_POSITIVE 160 79 38 76 41 NC_003454:FN1080|3end_Export_ABC_transporter_1727308..1727458_POSITIVE 158 100 68 59 28 NC_003454:FN1262|3end_Integral_membrane_protein_1919682..1919832_POSITIVE 157 69 24 71 24 NC_003454:FN1257|3end_C4-dicarboxylate_transporter_small_subunit_1913221..1913371_NEGATIVE 151 65 32 52 16 NC_003454:FN0307|3end_Iron(III)_dicitrate_transport_ATP-binding_protein_fecE_942969..943119_POSITIVE 150 81 47 66 17 NC_003454:FN2085|3end_hypothetical_protein_596560..596710_NEGATIVE 150 50 1 69 32 NC_003454:FN1744|3end_Transporter_242039..242189_NEGATIVE 148 68 38 60 28 NC_003454:FN1005|3end_hypothetical_protein_1660975..1661125_POSITIVE 147 110 73 115 84 NC_003454:FN0443|3end_hypothetical_protein_1082933..1083083_POSITIVE 143 85 45 130 97 NC_003454:FN1311|3end_Biopolymer_transport_exbD_protein_1965948..1966098_NEGATIVE 143 82 41 148 103 NC_003454:FN0723|3end_hypothetical_protein_1383464..1383614_POSITIVE 143 88 45 86 38 NC_003454:FN1999|3end_HIPA_protein_500869..501019_POSITIVE 142 110 63 74 20 NC_003454:FN1984|3end_Glutaredoxin-like_protein_487204..487354_POSITIVE