Origin IGS: tttttaatgccccctatttttttaattaaattagttgacattatatcatattttacaaaaatctcaaagattttagtctaaaattttatatcaatatgtataaaaatataatatagctatgaagat .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 atcttcatagctatattatatttttatacatattgatataaaattttagactaaaatctttgagatttttgtaaaatatgatataatgtcaactaatttaattaaaaaaatagggggcattaaaaa Mask Tandem Repeat Region ================================================ tttttaatgccccctatttttttaattaaattagttgacattatatcatattttacaaaaatctcaaagattttagtctaaaattttatatcaatatgtataaaaatataatatagctatgaagat Find is-nt database================================================ Query_seq: FN2069:FN2070|FN2069:FN2070:Amino acid carrier protein alsT:Cobyric acid synthase:<-<-:580468..580593 126 tttttaatgccccctatttttttaattaaattagttgacattatatcatattttacaaaaatctcaaagattttagtctaaaattttatatcaatatgtataaaaatataatatagctatgaagat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: FN2069:FN2070|FN2069:FN2070:Amino acid carrier protein alsT:Cobyric acid synthase:<-<-:580468..580593 126 tttttaatgccccctatttttttaattaaattagttgacattatatcatattttacaaaaatctcaaagattttagtctaaaattttatatcaatatgtataaaaatataatatagctatgaagat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: FN2069:FN2070|FN2069:FN2070:Amino acid carrier protein alsT:Cobyric acid synthase:<-<-:580468..580593 126 tttttaatgccccctatttttttaattaaattagttgacattatatcatattttacaaaaatctcaaagattttagtctaaaattttatatcaatatgtataaaaatataatatagctatgaagat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tttttaatgccccctatttttttaattaaattagttgacattatatcatattttacaaaaatctcaaagattttagtctaaaattttatatcaatatgtataaaaatataatatagctatgaagat Predict ORF larger than 30AA ================================================ tttttaatgccccctatttttttaattaaattagttgacattatatcatattttacaaaaatctcaaagattttagtctaaaattttatatcaatatgtataaaaatataatatagctatgaagat 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================================================ tttttaatgccccctatttttttaattaaattagttgacattatatcatattttacaaaaatctcaaagattttagtctaaaattttatatcaatatgtataaaaatataatatagctatgaagat Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: FN2069:FN2070|FN2069:FN2070:Amino acid carrier protein alsT:Cobyric acid synthase:<-<-:580468..580593 126 tttttaatgccccctatttttttaattaaattagttgacattatatcatattttacaaaaatctcaaagattttagtctaaaattttatatcaatatgtataaaaatataatatagctatgaagat Intra-Species Hit: Count: 1 Min: 1 Max: 126 Len: 126 Subject: NC_003454_FN2069_FN2070|Amino acid carrier protein alsT:Cobyric acid synthase|NEGATIVE:NEGATIVE|[580468,580593]|126 HSP 1 e-value: 3.0E-53 bit: 208.0 Len: 126 Query Start:1 Query End:126 Subject Strand: POSITIVE Subject Start: 1 Subject End: 126 tttttaatgccccctannnnnnnaattaaattagttgacattatatcatattttacaaaaatctcaaagattttagtctaaaattttatatcaatatgtataaaaatataatatagctatgaagat tttttaatgccccctatttttttaattaaattagttgacattatatcatattttacaaaaatctcaaagattttagtctaaaattttatatcaatatgtataaaaatataatatagctatgaagat Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUUUAAUGCCCCCUAUUUUUUUAAUUAAAUUAGUUGACAUUAUAUCAUAUUUUACAAAAAUCUCAAAGAUUUUAGUCUAAAAUUUUAUAUCAAUAUGUAUAAAAAUAUAAUAUAGCUAUGAAGAU ....(((((.(..(((.(((.......))).)))..).)))))..(((((....((.((((((.....)))))).))......((((((((......))))))))............))))).... (-11.80) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUCUUCAUAGCUAUAUUAUAUUUUUAUACAUAUUGAUAUAAAAUUUUAGACUAAAAUCUUUGAGAUUUUUGUAAAAUAUGAUAUAAUGUCAACUAAUUUAAUUAAAAAAAUAGGGGGCAUUAAAAA ............................((((((.....(((((((((((........))))))))))).....))))))...(((((((..(((.(((.......))).)))..))))))).... (-20.20) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 651 80 31 171 122 NC_003454:FN2069|5end_Amino_acid_carrier_protein_alsT_580377..580607_NEGATIVE 235 106 61 131 84 NC_003454:FN1015|5end_5'-methylthioadenosine_nucleosidase_1670314..1670544_NEGATIVE 220 39 5 164 127 NC_003454:FN1504|5end_Nickel-binding_protein_10015..10245_NEGATIVE 210 83 42 53 8 NC_003454:FN0573|5end_hypothetical_protein_1222518..1222748_POSITIVE 196 56 12 97 54 NC_003454:FN0906|5end_Glycerol-3-phosphate_dehydrogenase_[NAD(P)+]_1565131..1565361_NEGATIVE 189 50 1 140 91 NC_003454:FN0052|5end_Arsenate_reductase_688849..689079_POSITIVE 182 55 15 188 150 NC_003454:FN1658|5end_prolyl-tRNA_synthetase_154891..155121_NEGATIVE 176 54 12 132 87 NC_003454:FN0913|5end_Cobinamide_kinase_1570735..1570965_NEGATIVE 173 60 11 161 103 NC_003454:FN0871|5end_3-dehydroquinate_synthase_1531767..1531997_NEGATIVE 173 70 26 113 76 NC_003454:FN0615|5end_Export_ABC_transporter_1273187..1273417_POSITIVE 173 57 13 147 106 NC_003454:FN0348|5end_nicotinate_phosphoribosyltransferase_981723..981953_NEGATIVE 166 82 43 128 78 NC_003454:FN1182|5end_hypothetical_protein_1845438..1845668_NEGATIVE 166 24 8 116 98 NC_003454:FN1522|5end_Dipeptide_transport_system_permease_protein_dppC_27327..27557_POSITIVE 163 53 11 183 137 NC_003454:FN2023|5end_Hypothetical_cytosolic_protein_526642..526872_NEGATIVE 163 120 77 91 53 NC_003454:FN1575|5end_Hypothetical_cytosolic_protein_86495..86725_NEGATIVE 162 50 1 140 85 NC_003454:FN0147|5end_fatty_acid/phospholipid_synthesis_protein_775462..775692_POSITIVE 161 44 8 212 168 NC_003454:FN0079|5end_Ethanolamine_ammonia-lyase_heavy_chain_717662..717892_POSITIVE 160 37 8 171 149 NC_003454:FN1542|5end_1,4-dihydroxy-2-naphthoate_octaprenyltransferase_56192..56422_POSITIVE 158 42 9 65 25 NC_003454:FN0212|5end_hypothetical_protein_838125..838355_NEGATIVE 158 95 52 182 132 NC_003454:FN0066|5end_Two_component_system_histidine_kinase_702327..702557_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 176 54 12 70 25 NC_003454:FN0914|3end_hypothetical_protein_1570797..1570947_NEGATIVE 173 70 26 109 72 NC_003454:FN0614|3end_Export_ABC_transporter_1273263..1273413_POSITIVE 166 82 43 138 88 NC_003454:FN1183|3end_Hypothetical_cytosolic_protein_1845428..1845578_NEGATIVE 166 24 8 115 97 NC_003454:FN1521|3end_Dipeptide_transport_system_permease_protein_dppB_27406..27556_POSITIVE 164 43 1 146 101 NC_003454:FN0636|3end_hypothetical_protein_1295609..1295759_POSITIVE 163 120 77 81 43 NC_003454:FN1576|3end_ATPase_and_helicase_subunits_involved_in_DNA_replication_86505..86655_NEGATIVE 162 79 31 78 21 NC_003454:FN0872|3end_hypothetical_protein_1531874..1532024_NEGATIVE 157 47 1 95 48 NC_003454:FN1495|3end_hypothetical_protein_-89..61_NEGATIVE 154 51 13 84 51 NC_003454:FN0239|3end_hypothetical_protein_863923..864073_POSITIVE 154 86 45 127 94 NC_003454:FN0220|3end_Autolysin_sensor_kinase_843309..843459_NEGATIVE 153 23 5 100 82 NC_003454:FN0868|3end_ATPase_of_the_PP_superfamily_1527217..1527367_NEGATIVE 153 26 6 117 96 NC_003454:FN0771|3end_Oxygen-independent_coproporphyrinogen_III_oxidase_1428777..1428927_POSITIVE 153 18 8 44 34 NC_003454:FN0386|3end_hypothetical_protein_1019889..1020039_POSITIVE 151 54 37 88 71 NC_003454:FN1740|3end_ATP_synthase_subunit_K_237918..238068_NEGATIVE 148 59 17 71 28 NC_003454:FN0412|3end_Recombination_protein_recR_1049222..1049372_POSITIVE 148 49 7 48 11 NC_003454:FN0188|3end_bifunctional_methionine_sulfoxide_reductase_A/B_protein_813252..813402_POSITIVE 147 39 10 113 72 NC_003454:FN0610|3end_hypothetical_protein_1268362..1268512_POSITIVE 147 50 10 117 76 NC_003454:FN0198|3end_Transcriptional_regulatory_protein_825823..825973_POSITIVE 146 36 8 113 80 NC_003454:FN1247|3end_LOS_biosynthesis_enzyme_LBGB_1903205..1903355_NEGATIVE 146 48 6 113 65 NC_003454:FN0055|3end_Ribosomal-protein-alanine_acetyltransferase_692744..692894_POSITIVE