Origin IGS: ttttttgattgtataataaaagaatgtatgacattaatatttgtcatacattcttttttagggaaataataatctatatacactagtgttagtgtcaaattaatttataggcataat .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 attatgcctataaattaatttgacactaacactagtgtatatagattattatttccctaaaaaagaatgtatgacaaatattaatgtcatacattcttttattatacaatcaaaaaa Mask Tandem Repeat Region ================================================ ttttttgattgtataataaaagaatgtatgacattaatatttgtcatacattcttttttagggaaataataatctatatacactagtgttagtgtcaaattaatttataggcataat Find is-nt database================================================ Query_seq: FN1891:FN1893|FN1891:FN1893:Glycerophosphoryl diester phosphodiesterase:Fusobacterium outer membrane protein family:<-<-:374385..374501 117 ttttttgattgtataataaaagaatgtatgacattaatatttgtcatacattcttttttagggaaataataatctatatacactagtgttagtgtcaaattaatttataggcataat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: FN1891:FN1893|FN1891:FN1893:Glycerophosphoryl diester phosphodiesterase:Fusobacterium outer membrane protein family:<-<-:374385..374501 117 ttttttgattgtataataaaagaatgtatgacattaatatttgtcatacattcttttttagggaaataataatctatatacactagtgttagtgtcaaattaatttataggcataat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: FN1891:FN1893|FN1891:FN1893:Glycerophosphoryl diester phosphodiesterase:Fusobacterium outer membrane protein family:<-<-:374385..374501 117 ttttttgattgtataataaaagaatgtatgacattaatatttgtcatacattcttttttagggaaataataatctatatacactagtgttagtgtcaaattaatttataggcataat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ttttttgattgtataataaaagaatgtatgacattaatatttgtcatacattcttttttagggaaataataatctatatacactagtgttagtgtcaaattaatttataggcataat Predict ORF larger than 30AA ================================================ Protein_Len: 34 Strand: - Start: 3 End: 104 .. K S Q I I F S H I V N I N T M C E K K P F Y Y D I Y V L T L T L N M ............. ttttttgattgtataataaaagaatgtatgacattaatatttgtcatacattcttttttagggaaataataatctatatacactagtgttagtgtcaaattaatttataggcataat 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================================================ ttttttgattgtataataaaagaatgtatgacattaatatttgtcatacattcttttttagggaaataataatctatatacactagtgttagtgtcaaattaatttataggcataat Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 82 HP_score: -10.5 Tail_Score: -3.32844 Start: 17 End: 58 Full_Region: attattatttcccta aaaaagaatgtatgaca aatattaa tgtcatacattctttta ttatacaatcaaaaa ................aaaaagaatgtatgacaaatattaatgtcatacattctttta........................................................... TransTerm Strand: - Conf: 95 HP_score: -10.4 Tail_Score: -4.78237 Start: 22 End: 53 Full_Region: tatttccctaaaaaa gaatgtatgaca aatattaa tgtcatacattc ttttattatacaatc .....................gaatgtatgacaaatattaatgtcatacattc................................................................ Find igs database================================================ Query_seq: FN1891:FN1893|FN1891:FN1893:Glycerophosphoryl diester phosphodiesterase:Fusobacterium outer membrane protein family:<-<-:374385..374501 117 ttttttgattgtataataaaagaatgtatgacattaatatttgtcatacattcttttttagggaaataataatctatatacactagtgttagtgtcaaattaatttataggcataat Intra-Species Hit: Count: 1 Min: 1 Max: 117 Len: 117 Subject: NC_003454_FN1891_FN1893|Glycerophosphoryl diester phosphodiesterase:Fusobacterium outer membrane protein family|NEGATIVE:NEGATIVE|[374385,374501]|117 HSP 1 e-value: 2.0E-60 bit: 232.0 Len: 117 Query Start:1 Query End:117 Subject Strand: POSITIVE Subject Start: 1 Subject End: 117 ttttttgattgtataataaaagaatgtatgacattaatatttgtcatacattcttttttagggaaataataatctatatacactagtgttagtgtcaaattaatttataggcataat ttttttgattgtataataaaagaatgtatgacattaatatttgtcatacattcttttttagggaaataataatctatatacactagtgttagtgtcaaattaatttataggcataat Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUUUUGAUUGUAUAAUAAAAGAAUGUAUGACAUUAAUAUUUGUCAUACAUUCUUUUUUAGGGAAAUAAUAAUCUAUAUACACUAGUGUUAGUGUCAAAUUAAUUUAUAGGCAUAAU .........((((((..((((((((((((((((........))))))))))))))))....(((........))).))))))(((..((((((.....))))))...)))....... (-27.40) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUUAUGCCUAUAAAUUAAUUUGACACUAACACUAGUGUAUAUAGAUUAUUAUUUCCCUAAAAAAGAAUGUAUGACAAAUAUUAAUGUCAUACAUUCUUUUAUUAUACAAUCAAAAAA ........(((((..(((((((((((((....))))))...)))))))............((((((((((((((((........)))))))))))))))).)))))........... (-27.40) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 701 90 41 181 132 NC_003454:FN1891|5end_Glycerophosphoryl_diester_phosphodiesterase_374294..374524_NEGATIVE 219 98 54 169 122 NC_003454:FN0935|5end_hypothetical_protein_1588526..1588756_NEGATIVE 218 96 51 224 165 NC_003454:FN0279|5end_Lipoprotein_906479..906709_NEGATIVE 212 77 37 120 81 NC_003454:FN1764|5end_Enolase_257997..258227_NEGATIVE 209 79 43 42 5 NC_003454:FN0021|5end_4-diphosphocytidyl-2-C-methyl-D-erythritol_kinase_659890..660120_POSITIVE 183 98 54 72 20 NC_003454:FN1993|5end_SUA5_protein_496917..497147_POSITIVE 182 58 17 107 62 NC_003454:FN1010|5end_Hypothetical_cytosolic_protein_1664608..1664838_NEGATIVE 182 105 81 183 160 NC_003454:FN0562|5end_Hypothetical_cytosolic_protein_1214964..1215194_POSITIVE 180 61 32 172 137 NC_003454:FN0266|5end_membrane_protein_related_to_metalloendopeptidase_892320..892550_POSITIVE 174 64 22 108 67 NC_003454:FN0741|5end_Glutamate_formiminotransferase_1399956..1400186_NEGATIVE 173 58 20 99 50 NC_003454:FN0228|5end_Transcriptional_regulator,_DeoR_family_856183..856413_NEGATIVE 166 48 7 62 11 NC_003454:FN0023|5end_Short-chain_fatty_acids_transporter_661201..661431_POSITIVE 165 46 1 155 115 NC_003454:FN0105|5end_Hypothetical_cytosolic_protein_740207..740437_POSITIVE 165 97 59 108 66 NC_003454:FN1872|5end_hypothetical_protein_363043..363273_NEGATIVE 164 66 21 201 164 NC_003454:FN1288|5end_hypothetical_protein_1944580..1944810_POSITIVE 164 96 54 226 176 NC_003454:FN0628|5end_Glucosamine--fructose-6-phosphate_aminotransferase_[isomerizing]_1288257..1288487_NEGATIVE 163 77 33 220 172 NC_003454:FN1227|5end_hypothetical_protein_1885707..1885937_NEGATIVE 163 77 37 124 81 NC_003454:FN0527|5end_Alanyl-tRNA_synthetase_1184098..1184328_NEGATIVE 163 94 77 36 20 NC_003454:FN2010|5end_Transcriptional_regulator,_MarR_family_510302..510532_NEGATIVE 160 107 61 146 109 NC_003454:FN1311|5end_Biopolymer_transport_exbD_protein_1966250..1966480_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 486 94 51 81 40 NC_003454:FN1554|3end_Fusobacterium_outer_membrane_protein_family_68719..68869_NEGATIVE 469 94 51 73 33 NC_003454:FN1449|3end_Fusobacterium_outer_membrane_protein_family_2118612..2118762_NEGATIVE 227 79 33 61 9 NC_003454:FN0020|3end_Heat_shock_protein_15_659989..660139_POSITIVE 212 77 37 94 55 NC_003454:FN1765|3end_pyruvate_kinase_258023..258173_NEGATIVE 201 98 56 46 1 NC_003454:FN0936|3end_CapC_protein_1588649..1588799_NEGATIVE 184 87 42 109 69 NC_003454:FN0499|3end_Hemin_receptor_1146173..1146323_NEGATIVE 183 98 54 70 18 NC_003454:FN1992|3end_Ribose-phosphate_pyrophosphokinase_496995..497145_POSITIVE 182 105 81 45 22 NC_003454:FN0561|3end_Proline_synthetase_associated_protein_1214906..1215056_POSITIVE 177 90 47 129 92 NC_003454:FN0181|3end_hypothetical_protein_805457..805607_NEGATIVE 165 97 59 49 7 NC_003454:FN1873|3end_Bis(5'-nucleosyl)-tetraphosphatase_363102..363252_NEGATIVE 161 87 41 50 5 NC_003454:FN1228|3end_hypothetical_protein_1885882..1886032_NEGATIVE 160 107 61 56 19 NC_003454:FN1312|3end_Biopolymer_transport_exbB_protein_1966340..1966490_NEGATIVE 159 87 42 115 67 NC_003454:FN0055|3end_Ribosomal-protein-alanine_acetyltransferase_692744..692894_POSITIVE 155 62 21 112 75 NC_003454:FN1998|3end_HIPA_protein_500391..500541_POSITIVE 154 62 23 77 28 NC_003454:FN0665|3end_N-acetylmuramoyl-L-alanine_amidase_1321626..1321776_POSITIVE 153 80 50 117 87 NC_003454:FN0288|3end_Hypoxanthine-guanine_phosphoribosyltransferase_915238..915388_NEGATIVE 152 65 27 80 43 NC_003454:FN0649|3end_Exoenzyme_regulatory_protein_aepA_precursor_1306089..1306239_NEGATIVE 151 64 21 139 93 NC_003454:FN1971|3end_Hemin_receptor_469133..469283_NEGATIVE 150 48 2 95 45 NC_003454:FN1249|3end_Transcriptional_regulator,_DeoR_family_1905297..1905447_NEGATIVE 150 75 51 83 64 NC_003454:FN1634|3end_LSU_ribosomal_protein_L24P_136078..136228_NEGATIVE