Origin IGS: ttataaaaacagtttgttaccaactattatgtagtaaaaaatagttcattgctagctaaatttcttaacactgaaaaattgacattcgctgcaaattcaaccaactcgctaacaagttagctcaaacatgttgagatttgctcggctcatttgcttcaatttttcatctaaaatttagaatacaatttcacttattttttatctacaatattaataataagacaaatgaaaggaaataaat .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 atttatttcctttcatttgtcttattattaatattgtagataaaaaataagtgaaattgtattctaaattttagatgaaaaattgaagcaaatgagccgagcaaatctcaacatgtttgagctaacttgttagcgagttggttgaatttgcagcgaatgtcaatttttcagtgttaagaaatttagctagcaatgaactattttttactacataatagttggtaacaaactgtttttataa Mask Tandem Repeat Region ================================================ ttataaaaacagtttgttaccaactattatgtagtaaaaaatagttcattgctagctaaatttcttaacactgaaaaattgacattcgctgcaaattcaaccaactcgctaacaagttagctcaaacatgttgagatttgctcggctcatttgcttcaatttttcatctaaaatttagaatacaatttcacttattttttatctacaatattaataataagacaaatgaaaggaaataaat Find is-nt database================================================ Query_seq: FN0046:FN0047|FN0046:FN0047:3-dehydroquinate dehydratase:Exodeoxyribonuclease III:->->:684326..684566 241 ttataaaaacagtttgttaccaactattatgtagtaaaaaatagttcattgctagctaaatttcttaacactgaaaaattgacattcgctgcaaattcaaccaactcgctaacaagttagctcaaacatgttgagatttgctcggctcatttgcttcaatttttcatctaaaatttagaatacaatttcacttattttttatctacaatattaataataagacaaatgaaaggaaataaat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: FN0046:FN0047|FN0046:FN0047:3-dehydroquinate dehydratase:Exodeoxyribonuclease III:->->:684326..684566 241 ttataaaaacagtttgttaccaactattatgtagtaaaaaatagttcattgctagctaaatttcttaacactgaaaaattgacattcgctgcaaattcaaccaactcgctaacaagttagctcaaacatgttgagatttgctcggctcatttgcttcaatttttcatctaaaatttagaatacaatttcacttattttttatctacaatattaataataagacaaatgaaaggaaataaat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: FN0046:FN0047|FN0046:FN0047:3-dehydroquinate dehydratase:Exodeoxyribonuclease III:->->:684326..684566 241 ttataaaaacagtttgttaccaactattatgtagtaaaaaatagttcattgctagctaaatttcttaacactgaaaaattgacattcgctgcaaattcaaccaactcgctaacaagttagctcaaacatgttgagatttgctcggctcatttgcttcaatttttcatctaaaatttagaatacaatttcacttattttttatctacaatattaataataagacaaatgaaaggaaataaat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 1 Min: 34 Max: 175 Len: 142 Subject: UniRef90_Q7P3S4 Cluster: Hypothetical protein FNV0127; n=1; Fusobacterium nucleatum subsp. vincentii ATCC 49256|Rep: Hypothetical protein FNV0127 - Fusobacterium nucleatum subsp. vincentii ATCC 49256 HSP 1 e-value: 5.0E-8 bit: 45.4 Len: 84 Query Start:34 Query End:117 Subject Strand: null Subject Start: 23 Subject End: 50 ................................. V K N S S L L A K F L N T E K L T F A A N S T N S L T S ............................................................................................................................ ................................. L K N S S L L A K F L N D E K L T F A A N S L N S F H S ............................................................................................................................ HSP 2 e-value: 5.0E-8 bit: 33.5 Len: 54 Query Start:122 Query End:175 Subject Strand: null Subject Start: 50 Subject End: 67 ......................................................................................................................... S N M L R F A R L I C F N F S S K I .................................................................. ......................................................................................................................... S N T A R F A R L T C F N F S S K I .................................................................. ttataaaaacagtttgttaccaactattatgtannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnntagcnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnntagaatacaatttcacttattttttatctacaatattaataataagacaaatgaaaggaaataaat Predict ORF larger than 30AA ================================================ Protein_Len: 34 Strand: + Start: 138 End: 236 ......................................................................................................................................... M L G S F A S I F H L K F R I Q F H L F F I Y N I N N K T N E R K * ..... ttataaaaacagtttgttaccaactattatgtannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnntagcnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnntagaatacaatttcacttattttttatctacaatattaataataagacaaatgaaaggaaataaat 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================================================ ttataaaaacagtttgttaccaactattatgtannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnntagcnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnntagaatacaatttcacttattttttatctacaatattaataataagacaaatgaaaggaaataaat Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 49 HP_score: -4.3 Tail_Score: -2.8478 Start: 121 End: 135 Full_Region: TCGCTAACAAGTTAG CTCAA ACATG TTGAG ATTTGCTCGGCTCAT ........................................................................................................................CTCAAACATGTTGAG.......................................................................................................... Find igs database================================================ Query_seq: FN0046:FN0047|FN0046:FN0047:3-dehydroquinate dehydratase:Exodeoxyribonuclease III:->->:684326..684566 241 ttataaaaacagtttgttaccaactattatgtannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnntagcnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnntagaatacaatttcacttattttttatctacaatattaataataagacaaatgaaaggaaataaat Intra-Species Hit: Count: 1 Min: 1 Max: 241 Len: 241 Subject: NC_003454_FN0046_FN0047|3-dehydroquinate dehydratase:Exodeoxyribonuclease III|POSITIVE:POSITIVE|[684326,684566]|241 HSP 1 e-value: 1.0E-29 bit: 131.0 Len: 66 Query Start:176 Query End:241 Subject Strand: POSITIVE Subject Start: 176 Subject End: 241 ...............................................................................................................................................................................tagaatacaatttcacttattttttatctacaatattaataataagacaaatgaaaggaaataaat ...............................................................................................................................................................................tagaatacaatttcacttattttttatctacaatattaataataagacaaatgaaaggaaataaat HSP 2 e-value: 6.0E-10 bit: 65.9 Len: 33 Query Start:1 Query End:33 Subject Strand: POSITIVE Subject Start: 1 Subject End: 33 ttataaaaacagtttgttaccaactattatgta................................................................................................................................................................................................................ ttataaaaacagtttgttaccaactattatgta................................................................................................................................................................................................................ Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUAUAAAAACAGUUUGUUACCAACUAUUAUGUAGUAAAAAAUAGUUCAUUGCUAGCUAAAUUUCUUAACACUGAAAAAUUGACAUUCGCUGCAAAUUCAACCAACUCGCUAACAAGUUAGCUCAAACAUGUUGAGAUUUGCUCGGCUCAUUUGCUUCAAUUUUUCAUCUAAAAUUUAGAAUACAAUUUCACUUAUUUUUUAUCUACAAUAUUAAUAAUAAGACAAAUGAAAGGAAAUAAAU ...........(((((((......(((((((((((((((((((((..((((....((((((((........(((((((((((........(((((((((((......(((((....)))))........))))).))))))..(((......))))))))))))))....))))))))....))))...)).))))))))).)))))....)))))....))))))).............. (-46.34) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUUUAUUUCCUUUCAUUUGUCUUAUUAUUAAUAUUGUAGAUAAAAAAUAAGUGAAAUUGUAUUCUAAAUUUUAGAUGAAAAAUUGAAGCAAAUGAGCCGAGCAAAUCUCAACAUGUUUGAGCUAACUUGUUAGCGAGUUGGUUGAAUUUGCAGCGAAUGUCAAUUUUUCAGUGUUAAGAAAUUUAGCUAGCAAUGAACUAUUUUUUACUACAUAAUAGUUGGUAACAAACUGUUUUUAUAA ...............(((((((.(((((((....(((((.(((((((((.((...(((((...(((((((((...(((((((((((.....((..((...((((((.(((((........(((((....)))))......))))))))))).))..)).))))))))))).......)))))))))...)))))..))))))))))))))))))))))).))..)))))............ (-55.54) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 659 150 103 91 43 NC_003454:FN1460|5end_Hypothetical_cytosolic_protein_2141429..2141659_POSITIVE 602 149 103 126 79 NC_003454:FN1604|5end_hypothetical_protein_113822..114052_NEGATIVE 594 148 101 231 191 NC_003454:FN1651|5end_Oligopeptide_transport_system_permease_protein_oppB_145799..146029_NEGATIVE 521 69 30 205 166 NC_003454:FN1603|5end_2',3'-cyclic_nucleotide_3'-phosphodiesterase_113661..113891_NEGATIVE 482 80 32 156 104 NC_003454:FN0081|5end_Ethanolamine_utilization_protein_eutL_720035..720265_POSITIVE 481 79 31 207 159 NC_003454:FN0798|5end_Fructose-1,6-bisphosphatase_1455835..1456065_POSITIVE 409 110 61 194 144 NC_003454:FN0714|5end_NADH_oxidase_1372062..1372292_POSITIVE 368 170 122 145 97 NC_003454:FN1507|5end_riboflavin_synthase_subunit_alpha_12073..12303_POSITIVE 275 68 29 166 124 NC_003454:FN0367|5end_Integral_membrane_protein_996901..997131_NEGATIVE 263 73 38 139 103 NC_003454:FN1440|5end_1-phosphofructokinase_2107238..2107468_POSITIVE 258 117 79 207 169 NC_003454:FN1167|5end_beta-methylgalactoside_transporter_inner_membrane_component_1825538..1825768_POSITIVE 257 57 14 188 142 NC_003454:FN0578|5end_ATP-dependent_DNA_helicase_recQ_1227941..1228171_POSITIVE 240 67 29 230 189 NC_003454:FN0454|5end_Aldehyde_dehydrogenase_B_1099467..1099697_POSITIVE 238 176 137 206 164 NC_003454:FN0245|5end_Copper-exporting_ATPase_868291..868521_POSITIVE 234 170 121 225 176 NC_003454:FN1482|5end_Guanosine-3',5'-bis(Diphosphate)_3'-pyrophosphohydrolase_2165992..2166222_NEGATIVE 228 170 127 90 52 NC_003454:FN0702|5end_N-acyl-L-amino_acid_amidohydrolase_1361002..1361232_NEGATIVE 226 169 121 56 13 NC_003454:FN1481|5end_Queuine_tRNA-ribosyltransferase_2163800..2164030_NEGATIVE 222 133 91 66 25 NC_003454:FN2003|5end_bioY_protein_503745..503975_POSITIVE 221 139 91 101 48 NC_003454:FN0793|5end_Sodium/glutamate_symport_carrier_protein_1450512..1450742_POSITIVE 220 68 29 202 162 NC_003454:FN1615|5end_Integral_membrane_protein_125125..125355_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 470 80 36 49 5 NC_003454:FN0080|3end_ethanolamine_ammonia-lyase_small_subunit_720008..720158_POSITIVE 443 207 166 65 24 NC_003454:FN0796|3end_pyruvate_phosphate_dikinase_1455643..1455793_POSITIVE 368 170 122 52 4 NC_003454:FN1506|3end_5-amino-6-(5-phosphoribosylamino)uracil_reductase_12060..12210_POSITIVE 344 70 29 44 5 NC_003454:FN0454|3end_Aldehyde_dehydrogenase_B_1101022..1101172_POSITIVE 292 180 132 58 10 NC_003454:FN0713|3end_Chromate_transport_protein_1371943..1372093_POSITIVE 263 73 38 66 30 NC_003454:FN1439|3end_Transcriptional_regulator,_DeoR_family_2107245..2107395_POSITIVE 243 70 29 66 23 NC_003454:FN0453|3end_Xaa-Pro_aminopeptidase_1099381..1099531_POSITIVE 225 144 105 39 1 NC_003454:FN2094|3end_General_secretion_pathway_protein_F_603799..603949_NEGATIVE 217 57 11 113 76 NC_003454:FN0438|3end_Branched_chain_amino_acid_transport_system_II_carrier_protein_1079635..1079785_NEGATIVE 217 152 119 36 4 NC_003454:FN0156|3end_Phosphopantetheine_adenylyltransferase_784974..785124_POSITIVE 216 207 161 95 36 NC_003454:FN2008|3end_Glycine_betaine_transport_ATP-binding_protein_507597..507747_NEGATIVE 212 174 142 132 95 NC_003454:FN0681|3end_Transcriptional_regulator,_MarR_family_1336872..1337022_POSITIVE 206 169 122 128 85 NC_003454:FN0707|3end_FMN_adenylyltransferase_1366776..1366926_POSITIVE 204 169 127 41 1 NC_003454:FN1482|3end_Guanosine-3',5'-bis(Diphosphate)_3'-pyrophosphohydrolase_2163815..2163965_NEGATIVE 203 156 118 141 106 NC_003454:FN1426|3end_Serine_protease_2092577..2092727_NEGATIVE 203 156 118 141 106 NC_003454:FN1950|3end_Serine_protease_455063..455213_NEGATIVE 199 152 111 148 106 NC_003454:FN0649|3end_Exoenzyme_regulatory_protein_aepA_precursor_1306089..1306239_NEGATIVE 193 169 131 89 42 NC_003454:FN1603|3end_2',3'-cyclic_nucleotide_3'-phosphodiesterase_111610..111760_NEGATIVE 191 90 41 59 4 NC_003454:FN1592|3end_Na(+)-translocating_NADH-quinone_reductase_subunit_D_103162..103312_NEGATIVE 190 142 106 37 5 NC_003454:FN1533|3end_Electron_transfer_flavoprotein_alpha-subunit_45350..45500_NEGATIVE