Origin IGS: taagaaaataactcttaggtagtaatacttaggagttttttatattaaaaaatggtattgataaaaatttcttctatcaacaccatttattatacaacca .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tggttgtataataaatggtgttgatagaagaaatttttatcaataccattttttaatataaaaaactcctaagtattactacctaagagttattttctta Mask Tandem Repeat Region ================================================ taagaaaataactcttaggtagtaatacttaggagttttttatattaaaaaatggtattgataaaaatttcttctatcaacaccatttattatacaacca Find is-nt database================================================ Query_seq: FN0119:FN0120|FN0119:FN0120:Flavodoxin:hypothetical protein:-><-:752708..752807 100 taagaaaataactcttaggtagtaatacttaggagttttttatattaaaaaatggtattgataaaaatttcttctatcaacaccatttattatacaacca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: FN0119:FN0120|FN0119:FN0120:Flavodoxin:hypothetical protein:-><-:752708..752807 100 taagaaaataactcttaggtagtaatacttaggagttttttatattaaaaaatggtattgataaaaatttcttctatcaacaccatttattatacaacca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: FN0119:FN0120|FN0119:FN0120:Flavodoxin:hypothetical protein:-><-:752708..752807 100 taagaaaataactcttaggtagtaatacttaggagttttttatattaaaaaatggtattgataaaaatttcttctatcaacaccatttattatacaacca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taagaaaataactcttaggtagtaatacttaggagttttttatattaaaaaatggtattgataaaaatttcttctatcaacaccatttattatacaacca Predict ORF larger than 30AA ================================================ taagaaaataactcttaggtagtaatacttaggagttttttatattaaaaaatggtattgataaaaatttcttctatcaacaccatttattatacaacca 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: 82 Start: 52 End: 81 ...................................................GTTGATAGAAGAAATTTTTATCAATACCAT................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ taagaaaataactcttaggtagtaatacttaggagttttttatattaaaaaatggtattgataaaaatttcttctatcaacaccatttattatacaacca Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: FN0119:FN0120|FN0119:FN0120:Flavodoxin:hypothetical protein:-><-:752708..752807 100 taagaaaataactcttaggtagtaatacttaggagttttttatattaaaaaatggtattgataaaaatttcttctatcaacaccatttattatacaacca Intra-Species Hit: Count: 1 Min: 1 Max: 100 Len: 100 Subject: NC_003454_FN0119_FN0120|Flavodoxin:hypothetical protein|POSITIVE:NEGATIVE|[752708,752807]|100 HSP 1 e-value: 2.0E-50 bit: 198.0 Len: 100 Query Start:1 Query End:100 Subject Strand: POSITIVE Subject Start: 1 Subject End: 100 taagaaaataactcttaggtagtaatacttaggagttttttatattaaaaaatggtattgataaaaatttcttctatcaacaccatttattatacaacca taagaaaataactcttaggtagtaatacttaggagttttttatattaaaaaatggtattgataaaaatttcttctatcaacaccatttattatacaacca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAGAAAAUAACUCUUAGGUAGUAAUACUUAGGAGUUUUUUAUAUUAAAAAAUGGUAUUGAUAAAAAUUUCUUCUAUCAACACCAUUUAUUAUACAACCA .....(((.((((((((((((....)))))))))))).)))....(((.(((((((.((((((.((.....)).)))))).))))))).)))........ (-27.10) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGGUUGUAUAAUAAAUGGUGUUGAUAGAAGAAAUUUUUAUCAAUACCAUUUUUUAAUAUAAAAAACUCCUAAGUAUUACUACCUAAGAGUUAUUUUCUUA ...((((((((.((((((((((((((((((...)))))))))))))))))).)).))))))..(((((.((.(((....))).)).)))))......... (-26.40) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 626 99 51 214 166 NC_003454:FN0599|5end_Transposase_1253833..1254063_POSITIVE 480 99 51 211 163 NC_003454:FN0275|5end_Transposase_901560..901790_NEGATIVE 212 90 68 30 9 NC_003454:FN1159|5end_fructose_1,6-bisphosphatase_II_1814731..1814961_POSITIVE 194 79 36 230 191 NC_003454:FN2115|5end_hypothetical_protein_624843..625073_NEGATIVE 191 64 27 126 91 NC_003454:FN1338|5end_hypothetical_protein_1991763..1991993_NEGATIVE 186 96 72 152 130 NC_003454:FN0717|5end_Ribosomal_small_subunit_pseudouridine_synthase_A_1374913..1375143_POSITIVE 186 64 27 126 91 NC_003454:FN0530|5end_hypothetical_protein_1186275..1186505_POSITIVE 186 64 27 126 91 NC_003454:FN0404|5end_hypothetical_protein_1042213..1042443_POSITIVE 186 64 27 126 91 NC_003454:FN0373|5end_hypothetical_protein_1002385..1002615_POSITIVE 186 64 27 126 91 NC_003454:FN1510|5end_hypothetical_protein_14311..14541_NEGATIVE 184 88 43 93 52 NC_003454:FN0812|5end_Hypothetical_cytosolic_protein_1471051..1471281_POSITIVE 183 35 1 103 67 NC_003454:FN0419|5end_aspartate_carbamoyltransferase_catalytic_subunit_1059713..1059943_POSITIVE 181 78 36 212 174 NC_003454:FN2127|5end_hypothetical_protein_638498..638728_NEGATIVE 181 77 32 91 53 NC_003454:FN1518|5end_RNA_polymerase_sigma-70_factor_24077..24307_NEGATIVE 179 100 53 226 167 NC_003454:FN1190|5end_Probable_cadmium-transporting_ATPase_1851677..1851907_POSITIVE 175 99 68 190 157 NC_003454:FN0056|5end_Acetyltransferase_692692..692922_POSITIVE 171 88 52 214 170 NC_003454:FN0212|5end_hypothetical_protein_838125..838355_NEGATIVE 171 53 12 138 100 NC_003454:FN1788|5end_2C-methyl-D-erythritol_2,4-cyclodiphosphate_synthase_269671..269901_POSITIVE 169 42 3 135 101 NC_003454:FN0002|5end_Ribonuclease_P_protein_component_642548..642778_POSITIVE 168 40 12 214 182 NC_003454:FN1753|5end_thiamine_biosynthesis_protein_ThiH_250344..250574_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 445 99 51 82 34 NC_003454:FN0123|3end_ATPase_755027..755177_POSITIVE 435 100 51 71 22 NC_003454:FN0299|3end_Aspartyl-tRNA_synthetase_934251..934401_POSITIVE 298 94 53 86 50 NC_003454:FN0927|3end_hypothetical_protein_1581693..1581843_NEGATIVE 296 86 41 44 2 NC_003454:FN0254|3end_Fusobacterium_outer_membrane_protein_family_881390..881540_POSITIVE 256 99 65 107 74 NC_003454:FN1815|3end_Transposase_295626..295776_NEGATIVE 241 99 75 25 1 NC_003454:FN0276|3end_Sodium-dependent_phosphate_transporter_901746..901896_NEGATIVE 236 84 48 84 45 NC_003454:FN0905|3end_hypothetical_protein_1563781..1563931_NEGATIVE 226 48 10 94 54 NC_003454:FN0119|3end_Flavodoxin_752647..752797_POSITIVE 225 90 46 86 46 NC_003454:FN0926|3end_GTP_pyrophosphokinase_1581671..1581821_POSITIVE 224 79 46 63 25 NC_003454:FN1913|3end_hydrolase_(HD_superfamily)_410054..410204_NEGATIVE 212 90 68 33 12 NC_003454:FN1158|3end_hypothetical_protein_1814814..1814964_POSITIVE 202 77 31 62 6 NC_003454:FN0542|3end_Beta_1,4_glucosyltransferase_1196094..1196244_POSITIVE 194 79 36 75 36 NC_003454:FN2116|3end_Hypothetical_exported_24-amino_acid_repeat_protein_624998..625148_NEGATIVE 184 88 43 70 29 NC_003454:FN0811|3end_hypothetical_protein_1471108..1471258_POSITIVE 183 35 1 41 5 NC_003454:FN0418|3end_pyrimidine_regulatory_protein_PyrR_1059731..1059881_POSITIVE 181 77 32 80 42 NC_003454:FN1519|3end_23S_rRNA_methyltransferase_24088..24238_NEGATIVE 180 94 51 69 30 NC_003454:FN0049|3end_hypothetical_protein_686919..687069_POSITIVE 172 75 31 65 29 NC_003454:FN1881|3end_Esterase_368250..368400_NEGATIVE 171 53 12 115 77 NC_003454:FN1787|3end_Tetratricopeptide_repeat_family_protein_269728..269878_POSITIVE 169 95 72 151 130 NC_003454:FN0716|3end_Phophatidylinositol-4-phosphate_5-kinase_1374993..1375143_POSITIVE