Origin IGS: gtttttaaggtaataagtgatctattttatagaatgaagaaattataggtaattatacttaggggctgttgcaaattaaactatatcacactctaaattttacttcatttataagtttgcaacagcccctaaaattttataataaaaagagaaaaaa .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 ttttttctctttttattataaaattttaggggctgttgcaaacttataaatgaagtaaaatttagagtgtgatatagtttaatttgcaacagcccctaagtataattacctataatttcttcattctataaaatagatcacttattaccttaaaaac Mask Tandem Repeat Region ================================================ gtttttaaggtaataagtgatctattttatagaatgaagaaattataggtaattatacttaggggctgttgcaaattaaactatatcacactctaaattttacttcatttataagtttgcaacagcccctaaaattttataataaaaagagaaaaaa Find is-nt database================================================ Query_seq: FN1476:FN1477|FN1476:FN1477:N-acetylmannosamine-6-phosphate 2-epimerase:Hypothetical membrane-spanning protein:->->:2159487..2159643 157 gtttttaaggtaataagtgatctattttatagaatgaagaaattataggtaattatacttaggggctgttgcaaattaaactatatcacactctaaattttacttcatttataagtttgcaacagcccctaaaattttataataaaaagagaaaaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: FN1476:FN1477|FN1476:FN1477:N-acetylmannosamine-6-phosphate 2-epimerase:Hypothetical membrane-spanning protein:->->:2159487..2159643 157 gtttttaaggtaataagtgatctattttatagaatgaagaaattataggtaattatacttaggggctgttgcaaattaaactatatcacactctaaattttacttcatttataagtttgcaacagcccctaaaattttataataaaaagagaaaaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: FN1476:FN1477|FN1476:FN1477:N-acetylmannosamine-6-phosphate 2-epimerase:Hypothetical membrane-spanning protein:->->:2159487..2159643 157 gtttttaaggtaataagtgatctattttatagaatgaagaaattataggtaattatacttaggggctgttgcaaattaaactatatcacactctaaattttacttcatttataagtttgcaacagcccctaaaattttataataaaaagagaaaaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gtttttaaggtaataagtgatctattttatagaatgaagaaattataggtaattatacttaggggctgttgcaaattaaactatatcacactctaaattttacttcatttataagtttgcaacagcccctaaaattttataataaaaagagaaaaaa Predict ORF larger than 30AA ================================================ Protein_Len: 30 Strand: + Start: 66 End: 155 ................................................................. M L Q I K L Y H T L N F T S F I S L Q Q P L K F Y N K K R K .. gtttttaaggtaataagtgatctattttatagaatgaagaaattataggtaattatacttaggggctgttgcaaattaaactatatcacactctaaattttacttcatttataagtttgcaacagcccctaaaattttataataaaaagagaaaaaa 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================================================ gtttttaaggtaataagtgatctattttatagaatgaagaaattataggtaattatacttaggggctgttgcaaattaaactatatcacactctaaattttacttcatttataagtttgcaacagcccctaaaattttataataaaaagagaaaaaa Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: FN1476:FN1477|FN1476:FN1477:N-acetylmannosamine-6-phosphate 2-epimerase:Hypothetical membrane-spanning protein:->->:2159487..2159643 157 gtttttaaggtaataagtgatctattttatagaatgaagaaattataggtaattatacttaggggctgttgcaaattaaactatatcacactctaaattttacttcatttataagtttgcaacagcccctaaaattttataataaaaagagaaaaaa Intra-Species Hit: Count: 1 Min: 1 Max: 157 Len: 157 Subject: NC_003454_FN1476_FN1477|N-acetylmannosamine-6-phosphate 2-epimerase:Hypothetical membrane-spanning protein|POSITIVE:POSITIVE|[2159487,2159643]|157 HSP 1 e-value: 4.0E-84 bit: 311.0 Len: 157 Query Start:1 Query End:157 Subject Strand: POSITIVE Subject Start: 1 Subject End: 157 gtttttaaggtaataagtgatctattttatagaatgaagaaattataggtaattatacttaggggctgttgcaaattaaactatatcacactctaaattttacttcatttataagtttgcaacagcccctaaaattttataataaaaagagaaaaaa gtttttaaggtaataagtgatctattttatagaatgaagaaattataggtaattatacttaggggctgttgcaaattaaactatatcacactctaaattttacttcatttataagtttgcaacagcccctaaaattttataataaaaagagaaaaaa Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GUUUUUAAGGUAAUAAGUGAUCUAUUUUAUAGAAUGAAGAAAUUAUAGGUAAUUAUACUUAGGGGCUGUUGCAAAUUAAACUAUAUCACACUCUAAAUUUUACUUCAUUUAUAAGUUUGCAACAGCCCCUAAAAUUUUAUAAUAAAAAGAGAAAAAA ....................(((...(((((((((.....(((((....)))))....(((((((((((((((((((....((((........................))))))))))))))))))))))).))))))))).....)))....... (-34.36) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUUUUCUCUUUUUAUUAUAAAAUUUUAGGGGCUGUUGCAAACUUAUAAAUGAAGUAAAAUUUAGAGUGUGAUAUAGUUUAAUUUGCAACAGCCCCUAAGUAUAAUUACCUAUAAUUUCUUCAUUCUAUAAAAUAGAUCACUUAUUACCUUAAAAAC .........((((((.........((((((((((((((((.((((.......)))).....(((((.(((...))).)))))..))))))))))))))))........................(((((...))))).............)))))). (-32.10) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 346 80 47 35 2 NC_003454:FN0027|5end_hypothetical_protein_664891..665121_NEGATIVE 330 144 104 177 136 NC_003454:FN1935|5end_Adenine-specific_methyltransferase_437061..437291_NEGATIVE 307 97 61 201 167 NC_003454:FN0374|5end_Single-stranded-DNA-specific_exonuclease_recJ_1002654..1002884_POSITIVE 301 97 61 47 13 NC_003454:FN0531|5end_hypothetical_protein_1186389..1186619_POSITIVE 296 107 61 231 184 NC_003454:FN2010|5end_Transcriptional_regulator,_MarR_family_510302..510532_NEGATIVE 288 80 61 200 181 NC_003454:FN1337|5end_hypothetical_protein_1991481..1991711_NEGATIVE 269 80 62 53 35 NC_003454:FN1509|5end_hypothetical_protein_14176..14406_NEGATIVE 259 77 61 94 78 NC_003454:FN1512|5end_Phophatidylinositol-4-phosphate_5-kinase_15845..16075_POSITIVE 258 130 81 189 140 NC_003454:FN0074|5end_Ethanolamine_utilization_protein_eutS_713328..713558_POSITIVE 245 78 43 136 102 NC_003454:FN0740|5end_imidazolonepropionase_1398914..1399144_NEGATIVE 237 127 84 127 70 NC_003454:FN0695|5end_ABC_transporter_ATP-binding_protein_1352886..1353116_POSITIVE 236 110 61 185 128 NC_003454:FN2104|5end_hypothetical_protein_614237..614467_POSITIVE 233 88 43 60 13 NC_003454:FN0939|5end_Hypothetical_membrane-spanning_protein_1592919..1593149_NEGATIVE 231 129 94 139 91 NC_003454:FN1711|5end_Methyltransferase_206325..206555_POSITIVE 228 95 60 223 192 NC_003454:FN1309|5end_hypothetical_protein_1964856..1965086_POSITIVE 227 128 81 135 82 NC_003454:FN1269|5end_Hypothetical_lipoprotein_1926242..1926472_NEGATIVE 227 128 81 55 1 NC_003454:FN1724|5end_Potassium_uptake_protein_KtrA_223310..223540_NEGATIVE 224 90 41 90 26 NC_003454:FN2105|5end_Integral_membrane_protein_614701..614931_POSITIVE 212 101 61 217 173 NC_003454:FN1949|5end_Xaa-Pro_dipeptidase_454922..455152_NEGATIVE 206 118 79 120 80 NC_003454:FN2018|5end_Single-stranded-DNA-specific_exonuclease_recJ_521927..522157_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 347 77 31 53 5 NC_003454:FN1907|3end_Thymidylate_synthase_400546..400696_POSITIVE 330 144 104 96 55 NC_003454:FN1936|3end_hypothetical_protein_437142..437292_NEGATIVE 315 130 111 65 46 NC_003454:FN1908|3end_Glycerophosphoryl_diester_phosphodiesterase_400596..400746_NEGATIVE 314 130 84 67 24 NC_003454:FN0528|3end_Cold_shock_protein_1184746..1184896_POSITIVE 301 97 61 151 117 NC_003454:FN0531|3end_hypothetical_protein_1186573..1186723_POSITIVE 296 107 61 100 53 NC_003454:FN2011|3end_Valyl-tRNA_synthetase_510433..510583_NEGATIVE 288 80 61 127 108 NC_003454:FN1338|3end_hypothetical_protein_1991554..1991704_NEGATIVE 282 141 109 95 67 NC_003454:FN0029|3end_Flavodoxin_666596..666746_NEGATIVE 280 132 114 32 14 NC_003454:FN1476|3end_N-acetylmannosamine-6-phosphate_2-epimerase_2159426..2159576_POSITIVE 280 130 93 83 46 NC_003454:FN1826|3end_Protease_314654..314804_NEGATIVE 272 73 31 65 19 NC_003454:FN0316|3end_hypothetical_protein_953234..953384_NEGATIVE 269 80 62 130 112 NC_003454:FN1509|3end_hypothetical_protein_14099..14249_NEGATIVE 263 130 102 77 54 NC_003454:FN0026|3end_Hypothetical_exported_24-amino_acid_repeat_protein_664832..664982_POSITIVE 260 130 114 84 68 NC_003454:FN0532|3end_Hypothetical_membrane-spanning_protein_1186524..1186674_NEGATIVE 259 138 114 90 65 NC_003454:FN0405|3end_tryptophanyl-tRNA_synthetase_1042465..1042615_NEGATIVE 251 141 109 95 65 NC_003454:FN1340|3end_Glutamyl-tRNA_synthetase_1993353..1993503_NEGATIVE 245 78 43 59 25 NC_003454:FN0741|3end_Glutamate_formiminotransferase_1398991..1399141_NEGATIVE 241 129 114 58 43 NC_003454:FN1508|3end_3,4-dihydroxy-2-butanone-4-phosphate_synthase_14117..14267_POSITIVE 240 145 107 71 35 NC_003454:FN1944|3end_Sodium-dependent_tryptophan_transporter_448026..448176_POSITIVE 239 77 31 57 12 NC_003454:FN0636|3end_hypothetical_protein_1295609..1295759_POSITIVE