Origin IGS: tataaaacaaacatttctttatttcttaattttttaaatagcaagagaataaaatctcttgctattttttattaacgaattgttaacgaaaaatttatataattaacttaacattaacggaataggaggaatat .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 atattcctcctattccgttaatgttaagttaattatataaatttttcgttaacaattcgttaataaaaaatagcaagagattttattctcttgctatttaaaaaattaagaaataaagaaatgtttgttttata Mask Tandem Repeat Region ================================================ tataaaacaaacatttctttatttcttaattttttaaatagcaagagaataaaatctcttgctattttttattaacgaattgttaacgaaaaatttatataattaacttaacattaacggaataggaggaatat Find is-nt database================================================ Query_seq: FN1398:FN1399|FN1398:FN1399:Amino acid carrier protein alsT:Hypothetical cytosolic protein:->->:2054361..2054494 134 tataaaacaaacatttctttatttcttaattttttaaatagcaagagaataaaatctcttgctattttttattaacgaattgttaacgaaaaatttatataattaacttaacattaacggaataggaggaatat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: FN1398:FN1399|FN1398:FN1399:Amino acid carrier protein alsT:Hypothetical cytosolic protein:->->:2054361..2054494 134 tataaaacaaacatttctttatttcttaattttttaaatagcaagagaataaaatctcttgctattttttattaacgaattgttaacgaaaaatttatataattaacttaacattaacggaataggaggaatat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: FN1398:FN1399|FN1398:FN1399:Amino acid carrier protein alsT:Hypothetical cytosolic protein:->->:2054361..2054494 134 tataaaacaaacatttctttatttcttaattttttaaatagcaagagaataaaatctcttgctattttttattaacgaattgttaacgaaaaatttatataattaacttaacattaacggaataggaggaatat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tataaaacaaacatttctttatttcttaattttttaaatagcaagagaataaaatctcttgctattttttattaacgaattgttaacgaaaaatttatataattaacttaacattaacggaataggaggaatat Predict ORF larger than 30AA ================================================ tataaaacaaacatttctttatttcttaattttttaaatagcaagagaataaaatctcttgctattttttattaacgaattgttaacgaaaaatttatataattaacttaacattaacggaataggaggaatat 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================================================ tataaaacaaacatttctttatttcttaattttttaaatagcaagagaataaaatctcttgctattttttattaacgaattgttaacgaaaaatttatataattaacttaacattaacggaataggaggaatat Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 100 HP_score: -10.6 Tail_Score: -5.4505 Start: 39 End: 64 Full_Region: TCTTAATTTTTTAAA TAGCAAGAGA ATAAAA TCTCTTGCTA TTTTTTATTAACGAA ......................................TAGCAAGAGAATAAAATCTCTTGCTA...................................................................... TransTerm Strand: - Conf: 86 HP_score: -10.6 Tail_Score: -3.57561 Start: 39 End: 64 Full_Region: ttcgttaataaaaaa tagcaagaga ttttat tctcttgcta tttaaaaaattaaga ......................................tagcaagagattttattctcttgcta...................................................................... Find igs database================================================ Query_seq: FN1398:FN1399|FN1398:FN1399:Amino acid carrier protein alsT:Hypothetical cytosolic protein:->->:2054361..2054494 134 tataaaacaaacatttctttatttcttaattttttaaatagcaagagaataaaatctcttgctattttttattaacgaattgttaacgaaaaatttatataattaacttaacattaacggaataggaggaatat Intra-Species Hit: Count: 1 Min: 1 Max: 134 Len: 134 Subject: NC_003454_FN1398_FN1399|Amino acid carrier protein alsT:Hypothetical cytosolic protein|POSITIVE:POSITIVE|[2054361,2054494]|134 HSP 1 e-value: 2.0E-70 bit: 266.0 Len: 134 Query Start:1 Query End:134 Subject Strand: POSITIVE Subject Start: 1 Subject End: 134 tataaaacaaacatttctttatttcttaattttttaaatagcaagagaataaaatctcttgctattttttattaacgaattgttaacgaaaaatttatataattaacttaacattaacggaataggaggaatat tataaaacaaacatttctttatttcttaattttttaaatagcaagagaataaaatctcttgctattttttattaacgaattgttaacgaaaaatttatataattaacttaacattaacggaataggaggaatat Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAUAAAACAAACAUUUCUUUAUUUCUUAAUUUUUUAAAUAGCAAGAGAAUAAAAUCUCUUGCUAUUUUUUAUUAACGAAUUGUUAACGAAAAAUUUAUAUAAUUAACUUAACAUUAACGGAAUAGGAGGAAUAU ............((((((((((((((((((.......(((((((((((......)))))))))))((((..(((((.....)))))..))))....................))))).)))))).))))))).. (-28.10) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUAUUCCUCCUAUUCCGUUAAUGUUAAGUUAAUUAUAUAAAUUUUUCGUUAACAAUUCGUUAAUAAAAAAUAGCAAGAGAUUUUAUUCUCUUGCUAUUUAAAAAAUUAAGAAAUAAAGAAAUGUUUGUUUUAUA ................(((((((..(((((.........)))))..)))))))..............(((((((((((((......)))))))))))))..........((((((((......))))))))... (-28.20) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 218 100 53 153 103 NC_003454:FN0188|5end_bifunctional_methionine_sulfoxide_reductase_A/B_protein_812276..812506_POSITIVE 194 83 55 61 33 NC_003454:FN2032|5end_DNA-directed_RNA_polymerase_omega_chain_537315..537545_NEGATIVE 190 66 21 92 56 NC_003454:FN0655|5end_hypothetical_protein_1313372..1313602_POSITIVE 187 65 21 64 23 NC_003454:FN1506|5end_5-amino-6-(5-phosphoribosylamino)uracil_reductase_10871..11101_POSITIVE 185 68 46 113 90 NC_003454:FN0762|5end_hypothetical_protein_1420100..1420330_NEGATIVE 178 69 22 157 117 NC_003454:FN0707|5end_FMN_adenylyltransferase_1365737..1365967_POSITIVE 175 114 75 219 174 NC_003454:FN0287|5end_Dimethyladenosine_transferase_915228..915458_NEGATIVE 174 48 1 222 168 NC_003454:FN1222|5end_hypothetical_protein_1881969..1882199_NEGATIVE 172 44 12 131 95 NC_003454:FN1987|5end_Transcriptional_regulator,_GntR_family_490668..490898_NEGATIVE 171 58 14 222 182 NC_003454:FN0796|5end_pyruvate_phosphate_dikinase_1453008..1453238_POSITIVE 168 86 54 128 94 NC_003454:FN0044|5end_Shikimate_5-dehydrogenase_682701..682931_POSITIVE 167 68 23 184 142 NC_003454:FN1645|5end_LSU_ribosomal_protein_L3P_141301..141531_NEGATIVE 165 84 59 139 112 NC_003454:FN0797|5end_hypothetical_protein_1455799..1456029_NEGATIVE 163 63 22 209 172 NC_003454:FN0580|5end_Penicillin-binding_protein_1234930..1235160_POSITIVE 162 96 55 213 166 NC_003454:FN0574|5end_Hypothetical_cytosolic_protein_1223521..1223751_POSITIVE 162 70 44 86 54 NC_003454:FN1798|5end_Spermidine/putrescine_transport_system_permease_protein_potB_279938..280168_POSITIVE 162 84 55 74 45 NC_003454:FN1520|5end_UDP-N-acetylglucosamine_1-carboxyvinyltransferase_26073..26303_NEGATIVE 161 44 14 141 112 NC_003454:FN1694|5end_UDP-N-acetyl-D-quinovosamine_4-epimerase_190169..190399_NEGATIVE 158 58 13 85 39 NC_003454:FN0774|5end_Hypothetical_cytosolic_protein_1429692..1429922_POSITIVE 158 70 22 228 172 NC_003454:FN0200|5end_Biotin_carboxyl_carrier_protein_of_glutaconyl-COA_decarboxylase_826123..826353_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 296 67 36 55 24 NC_003454:FN1398|3end_Amino_acid_carrier_protein_alsT_2054300..2054450_POSITIVE 218 100 53 96 46 NC_003454:FN0187|3end_Thiol:disulfide_interchange_protein_tlpA_812299..812449_POSITIVE 194 83 55 29 1 NC_003454:FN2033|3end_Guanylate_kinase_537347..537497_NEGATIVE 187 65 21 62 21 NC_003454:FN1505|3end_6,7-dimethyl-8-ribityllumazine_synthase_10949..11099_POSITIVE 178 69 22 142 102 NC_003454:FN0706|3end_Hypothetical_cytosolic_protein_1365802..1365952_POSITIVE 173 57 15 136 87 NC_003454:FN1327|3end_Dimethylallyltransferase_1982022..1982172_NEGATIVE 162 63 22 130 87 NC_003454:FN1856|3end_Butyrate-acetoacetate_CoA-transferase_subunit_B_345493..345643_NEGATIVE 162 70 44 99 67 NC_003454:FN1797|3end_Spermidine/putrescine_transport_ATP-binding_protein_potA_280031..280181_POSITIVE 161 44 14 141 112 NC_003454:FN1695|3end_Probable_quinovosaminephosphotransferae_190169..190319_NEGATIVE 156 52 21 151 122 NC_003454:FN0212|3end_hypothetical_protein_837583..837733_NEGATIVE 154 39 8 104 68 NC_003454:FN0731|3end_hypothetical_protein_1388333..1388483_POSITIVE 153 60 13 92 54 NC_003454:FN1416|3end_AMINOTRANSFERASE_CLASS-I_2078343..2078493_POSITIVE 153 72 43 125 94 NC_003454:FN1180|3end_hypothetical_protein_1841857..1842007_NEGATIVE 152 90 59 99 72 NC_003454:FN0940|3end_hypothetical_protein_1592975..1593125_NEGATIVE 150 84 43 106 60 NC_003454:FN0067|3end_Isoleucyl-tRNA_synthetase_707418..707568_POSITIVE 149 98 54 131 95 NC_003454:FN2008|3end_Glycine_betaine_transport_ATP-binding_protein_507597..507747_NEGATIVE 147 48 14 144 109 NC_003454:FN1085|3end_4-methyl-5(B-hydroxyethyl)-thiazole_monophosphate_biosynthesis_enzyme_1729562..1729712_POSITIVE 146 85 48 136 100 NC_003454:FN0765|3end_tRNA_(5-methylaminomethyl-2-thiouridylate)_-methyltransferase_1421960..1422110_POSITIVE 145 85 55 85 59 NC_003454:FN1330|3end_S-adenosylmethionine:tRNA_ribosyltransferase-isomerase_1983903..1984053_NEGATIVE 144 66 36 23 1 NC_003454:FN0654|3end_phosphoglycerate_kinase_1313383..1313533_POSITIVE