Origin IGS: gttttaaaaatagaaaacacttagaaaaatttctaggtgtttttttattttatgactttcaaatatagaatatttttttaatttatgttatcatatacacaagtgatacaaattttaagtgcaaggaaaggaatgagatac .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 gtatctcattcctttccttgcacttaaaatttgtatcacttgtgtatatgataacataaattaaaaaaatattctatatttgaaagtcataaaataaaaaaacacctagaaatttttctaagtgttttctatttttaaaac Mask Tandem Repeat Region ================================================ gttttaaaaatagaaaacacttagaaaaatttctaggtgtttttttattttatgactttcaaatatagaatatttttttaatttatgttatcatatacacaagtgatacaaattttaagtgcaaggaaaggaatgagatac Find is-nt database================================================ Query_seq: FN0999:FN1000|FN0999:FN1000:Deblocking aminopeptidase:biotin synthase:->->:1654938..1655078 141 gttttaaaaatagaaaacacttagaaaaatttctaggtgtttttttattttatgactttcaaatatagaatatttttttaatttatgttatcatatacacaagtgatacaaattttaagtgcaaggaaaggaatgagatac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: FN0999:FN1000|FN0999:FN1000:Deblocking aminopeptidase:biotin synthase:->->:1654938..1655078 141 gttttaaaaatagaaaacacttagaaaaatttctaggtgtttttttattttatgactttcaaatatagaatatttttttaatttatgttatcatatacacaagtgatacaaattttaagtgcaaggaaaggaatgagatac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: FN0999:FN1000|FN0999:FN1000:Deblocking aminopeptidase:biotin synthase:->->:1654938..1655078 141 gttttaaaaatagaaaacacttagaaaaatttctaggtgtttttttattttatgactttcaaatatagaatatttttttaatttatgttatcatatacacaagtgatacaaattttaagtgcaaggaaaggaatgagatac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gttttaaaaatagaaaacacttagaaaaatttctaggtgtttttttattttatgactttcaaatatagaatatttttttaatttatgttatcatatacacaagtgatacaaattttaagtgcaaggaaaggaatgagatac Predict ORF larger than 30AA ================================================ gttttaaaaatagaaaacacttagaaaaatttctaggtgtttttttattttatgactttcaaatatagaatatttttttaatttatgttatcatatacacaagtgatacaaattttaagtgcaaggaaaggaatgagatac 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: 83 Start: 65 End: 94 ................................................................ATAGAATATTTTTTTAATTTATGTTATCAT............................................... PromScan Matrix: RpoD-17 Strand: - Score: 82 Start: 90 End: 119 .........................................................................................CTTAAAATTTGTATCACTTGTGTATATGAT...................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ gttttaaaaatagaaaacacttagaaaaatttctaggtgtttttttattttatgactttcaaatatagaatatttttttaatttatgttatcatatacacaagtgatacaaattttaagtgcaaggaaaggaatgagatac Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 75 HP_score: -5.9 Tail_Score: -4.98672 Start: 18 End: 39 Full_Region: cataaaataaaaaaa cacctagaa attt ttctaagtg ttttctatttttaaa .................cacctagaaatttttctaagtg...................................................................................................... Find igs database================================================ Query_seq: FN0999:FN1000|FN0999:FN1000:Deblocking aminopeptidase:biotin synthase:->->:1654938..1655078 141 gttttaaaaatagaaaacacttagaaaaatttctaggtgtttttttattttatgactttcaaatatagaatatttttttaatttatgttatcatatacacaagtgatacaaattttaagtgcaaggaaaggaatgagatac Intra-Species Hit: Count: 1 Min: 1 Max: 141 Len: 141 Subject: NC_003454_FN0999_FN1000|Deblocking aminopeptidase:biotin synthase|POSITIVE:POSITIVE|[1654938,1655078]|141 HSP 1 e-value: 2.0E-23 bit: 109.0 Len: 55 Query Start:87 Query End:141 Subject Strand: POSITIVE Subject Start: 87 Subject End: 141 ......................................................................................gttatcatatacacaagtgatacaaattttaagtgcaaggaaaggaatgagatac ......................................................................................gttatcatatacacaagtgatacaaattttaagtgcaaggaaaggaatgagatac HSP 2 e-value: 9.0E-14 bit: 77.8 Len: 39 Query Start:1 Query End:39 Subject Strand: POSITIVE Subject Start: 1 Subject End: 39 gttttaaaaatagaaaacacttagaaaaatttctaggtg...................................................................................................... gttttaaaaatagaaaacacttagaaaaatttctaggtg...................................................................................................... Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GUUUUAAAAAUAGAAAACACUUAGAAAAAUUUCUAGGUGUUUUUUUAUUUUAUGACUUUCAAAUAUAGAAUAUUUUUUUAAUUUAUGUUAUCAUAUACACAAGUGAUACAAAUUUUAAGUGCAAGGAAAGGAAUGAGAUAC ...........(((((((((((((((....)))))))))))))))((((((((..(((((..(((((((.((......)).)))))))((((((........)))))).................)))))..)))))))). (-31.90) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GUAUCUCAUUCCUUUCCUUGCACUUAAAAUUUGUAUCACUUGUGUAUAUGAUAACAUAAAUUAAAAAAAUAUUCUAUAUUUGAAAGUCAUAAAAUAAAAAAACACCUAGAAAUUUUUCUAAGUGUUUUCUAUUUUUAAAAC ...........(((((..(((((..................)))))((((....)))).......................)))))...(((((....(((((((.(((((....))))).)))))))....))))).... (-17.17) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 218 70 26 112 72 NC_003454:FN0802|5end_Amino_acid_transport_system_permease_protein_1462136..1462366_NEGATIVE 213 100 57 91 46 NC_003454:FN0122|5end_hypothetical_protein_753401..753631_POSITIVE 186 96 53 107 56 NC_003454:FN1876|5end_4-methyl-5(B-hydroxyethyl)-thiazole_monophosphate_biosynthesis_enzyme_365064..365294_NEGATIVE 185 60 12 104 45 NC_003454:FN0859|5end_hypothetical_protein_1521229..1521459_NEGATIVE 179 80 32 191 141 NC_003454:FN0040|5end_asparaginyl-tRNA_synthetase_680609..680839_NEGATIVE 179 47 25 35 13 NC_003454:FN1540|5end_Iron-sulfur_cluster-binding_protein_53055..53285_POSITIVE 172 83 41 159 111 NC_003454:FN2089|5end_hypothetical_protein_601549..601779_NEGATIVE 171 79 39 167 129 NC_003454:FN1047|5end_Hypothetical_membrane-spanning_protein_1697175..1697405_POSITIVE 170 55 21 41 1 NC_003454:FN1896|5end_ABC_transporter_integral_membrane_protein_383909..384139_NEGATIVE 168 62 36 30 2 NC_003454:FN0907|5end_Ribosomal_RNA_small_subunit_methyltransferase_C_1565995..1566225_NEGATIVE 167 57 17 182 146 NC_003454:FN0446|5end_hypothetical_protein_1085719..1085949_POSITIVE 167 80 40 148 112 NC_003454:FN0062|5end_Hypothetical_cytosolic_protein_698605..698835_POSITIVE 163 138 120 36 14 NC_003454:FN0993|5end_Trk_system_potassium_uptake_protein_trkG_1647677..1647907_POSITIVE 163 60 19 142 99 NC_003454:FN0846|5end_hypothetical_protein_1504242..1504472_POSITIVE 163 105 71 140 104 NC_003454:FN0240|5end_Thymidylate_synthase_863894..864124_POSITIVE 161 59 11 212 161 NC_003454:FN1498|5end_Integral_membrane_protein_2563..2793_POSITIVE 160 140 117 67 43 NC_003454:FN1659|5end_hypothetical_protein_155036..155266_POSITIVE 159 80 31 221 179 NC_003454:FN1273|5end_Outer_membrane_protein_tolC_1929325..1929555_POSITIVE 159 60 11 103 42 NC_003454:FN0936|5end_CapC_protein_1589107..1589337_NEGATIVE 159 138 116 39 15 NC_003454:FN1995|5end_hypothetical_protein_498245..498475_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 322 58 12 92 46 NC_003454:FN0999|3end_Deblocking_aminopeptidase_1654877..1655027_POSITIVE 208 69 21 111 63 NC_003454:FN1310|3end_TonB_protein_1965148..1965298_NEGATIVE 197 50 9 89 39 NC_003454:FN1309|3end_hypothetical_protein_1965130..1965280_POSITIVE 180 46 7 81 37 NC_003454:FN1591|3end_RNFB-related_protein_101978..102128_NEGATIVE 171 79 39 100 62 NC_003454:FN1046|3end_hypothetical_protein_1697188..1697338_POSITIVE 169 73 31 112 73 NC_003454:FN1043|3end_hypothetical_protein_1694450..1694600_POSITIVE 167 80 40 52 16 NC_003454:FN0061|3end_Thermostable_carboxypeptidase_1_698589..698739_POSITIVE 166 50 7 75 34 NC_003454:FN0575|3end_hypothetical_protein_1225584..1225734_POSITIVE 163 138 120 33 11 NC_003454:FN0992|3end_ADP-heptose:LPS_heptosyltransferase_II_1647754..1647904_POSITIVE 163 60 19 44 1 NC_003454:FN0845|3end_hypothetical_protein_1504224..1504374_POSITIVE 163 105 71 89 53 NC_003454:FN0239|3end_hypothetical_protein_863923..864073_POSITIVE 159 60 11 113 52 NC_003454:FN0937|3end_Gamma-polyglutamic_acid_synthetase_1589097..1589247_NEGATIVE 159 139 116 53 28 NC_003454:FN1987|3end_Transcriptional_regulator,_GntR_family_490018..490168_NEGATIVE 158 60 17 127 85 NC_003454:FN0153|3end_Oxygen-independent_coproporphyrinogen_III_oxidase_781845..781995_POSITIVE 158 80 47 78 44 NC_003454:FN1729|3end_4-amino-4-deoxychorismate_lyase_228338..228488_NEGATIVE 157 92 51 54 15 NC_003454:FN0914|3end_hypothetical_protein_1570797..1570947_NEGATIVE 156 140 102 79 38 NC_003454:FN1419|3end_methionine_gamma-lyase_2081832..2081982_POSITIVE 153 55 20 89 58 NC_003454:FN0656|3end_hypothetical_protein_1314185..1314335_POSITIVE 151 60 23 103 61 NC_003454:FN0068|3end_Lipoprotein_signal_peptidase_707885..708035_POSITIVE 151 138 96 125 89 NC_003454:FN2006|3end_Cobalt_transport_protein_cbiQ_506959..507109_POSITIVE