Origin IGS: ataatcatatccatcaagtctactagattttcccttttcatttctataattattcaaattctgccaatcttcagcatcttctattaaacaatcatatggtgatttatttaaatctaaaaatttagtactcatatgaaacttaaattttatcttactttgttttctttctgtaaattctttaataaaatcagtaaatttaatcatattaatcccctctttatttaattttttataattactaa .........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 ttagtaattataaaaaattaaataaagaggggattaatatgattaaatttactgattttattaaagaatttacagaaagaaaacaaagtaagataaaatttaagtttcatatgagtactaaatttttagatttaaataaatcaccatatgattgtttaatagaagatgctgaagattggcagaatttgaataattatagaaatgaaaagggaaaatctagtagacttgatggatatgattat Mask Tandem Repeat Region ================================================ ataatcatatccatcaagtctactagattttcccttttcatttctataattattcaaattctgccaatcttcagcatcttctattaaacaatcatatggtgatttatttaaatctaaaaatttagtactcatatgaaacttaaattttatcttactttgttttctttctgtaaattctttaataaaatcagtaaatttaatcatattaatcccctctttatttaattttttataattactaa Find is-nt database================================================ Query_seq: FN0962:FN0963|FN0962:FN0963:Hypothetical cytosolic protein:hypothetical protein:<-<-:1616978..1617219 242 ataatcatatccatcaagtctactagattttcccttttcatttctataattattcaaattctgccaatcttcagcatcttctattaaacaatcatatggtgatttatttaaatctaaaaatttagtactcatatgaaacttaaattttatcttactttgttttctttctgtaaattctttaataaaatcagtaaatttaatcatattaatcccctctttatttaattttttataattactaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: FN0962:FN0963|FN0962:FN0963:Hypothetical cytosolic protein:hypothetical protein:<-<-:1616978..1617219 242 ataatcatatccatcaagtctactagattttcccttttcatttctataattattcaaattctgccaatcttcagcatcttctattaaacaatcatatggtgatttatttaaatctaaaaatttagtactcatatgaaacttaaattttatcttactttgttttctttctgtaaattctttaataaaatcagtaaatttaatcatattaatcccctctttatttaattttttataattactaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: FN0962:FN0963|FN0962:FN0963:Hypothetical cytosolic protein:hypothetical protein:<-<-:1616978..1617219 242 ataatcatatccatcaagtctactagattttcccttttcatttctataattattcaaattctgccaatcttcagcatcttctattaaacaatcatatggtgatttatttaaatctaaaaatttagtactcatatgaaacttaaattttatcttactttgttttctttctgtaaattctttaataaaatcagtaaatttaatcatattaatcccctctttatttaattttttataattactaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ataatcatatccatcaagtctactagattttcccttttcatttctataattattcaaattctgccaatcttcagcatcttctattaaacaatcatatggtgatttatttaaatctaaaaatttagtactcatatgaaacttaaattttatcttactttgttttctttctgtaaattctttaataaaatcagtaaatttaatcatattaatcccctctttatttaattttttataattactaa Predict ORF larger than 30AA ================================================ Protein_Len: 32 Strand: + Start: 27 End: 122 .......................... M F P F H F Y N Y S N S A N L Q H L L L N N H M V I Y L N L K I ........................................................................................................................ Protein_Len: 30 Strand: + Start: 133 End: 222 .................................................................................................................................... M K L K F Y L T L F S F C K F F N K I S K F N H I N P L F I .................... Protein_Len: 60 Strand: - Start: 1 End: 210 G K E N R Y N N L N Q W D E A D E I L C D Y P S K N L D L F K T S M H F K F K I K S Q K R E T F E K I F D T F K I M N M ................................ ataatcatatccatcaagtctactagattttcccttttcatttctataattattcaaattctgccaatcttcagcatcttctattaaacaatcatatggtgatttatttaaatctaaaaatttagtactcatatgaaacttaaattttatcttactttgttttctttctgtaaattctttaataaaatcagtaaatttaatcatattaatcccctctttatttaattttttataattactaa 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================================================ ataatcatatccatcaagtctactagattttcccttttcatttctataattattcaaattctgccaatcttcagcatcttctattaaacaatcatatggtgatttatttaaatctaaaaatttagtactcatatgaaacttaaattttatcttactttgttttctttctgtaaattctttaataaaatcagtaaatttaatcatattaatcccctctttatttaattttttataattactaa Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: FN0962:FN0963|FN0962:FN0963:Hypothetical cytosolic protein:hypothetical protein:<-<-:1616978..1617219 242 ataatcatatccatcaagtctactagattttcccttttcatttctataattattcaaattctgccaatcttcagcatcttctattaaacaatcatatggtgatttatttaaatctaaaaatttagtactcatatgaaacttaaattttatcttactttgttttctttctgtaaattctttaataaaatcagtaaatttaatcatattaatcccctctttatttaattttttataattactaa Intra-Species Hit: Count: 1 Min: 1 Max: 242 Len: 242 Subject: NC_003454_FN0962_FN0963|Hypothetical cytosolic protein:hypothetical protein|NEGATIVE:NEGATIVE|[1616978,1617219]|242 HSP 1 e-value: 1.0E-134 bit: 480.0 Len: 242 Query Start:1 Query End:242 Subject Strand: POSITIVE Subject Start: 1 Subject End: 242 ataatcatatccatcaagtctactagattttcccttttcatttctataattattcaaattctgccaatcttcagcatcttctattaaacaatcatatggtgatttatttaaatctaaaaatttagtactcatatgaaacttaaattttatcttactttgttttctttctgtaaattctttaataaaatcagtaaatttaatcatattaatcccctctttatttaattttttataattactaa ataatcatatccatcaagtctactagattttcccttttcatttctataattattcaaattctgccaatcttcagcatcttctattaaacaatcatatggtgatttatttaaatctaaaaatttagtactcatatgaaacttaaattttatcttactttgttttctttctgtaaattctttaataaaatcagtaaatttaatcatattaatcccctctttatttaattttttataattactaa Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUAAUCAUAUCCAUCAAGUCUACUAGAUUUUCCCUUUUCAUUUCUAUAAUUAUUCAAAUUCUGCCAAUCUUCAGCAUCUUCUAUUAAACAAUCAUAUGGUGAUUUAUUUAAAUCUAAAAAUUUAGUACUCAUAUGAAACUUAAAUUUUAUCUUACUUUGUUUUCUUUCUGUAAAUUCUUUAAUAAAAUCAGUAAAUUUAAUCAUAUUAAUCCCCUCUUUAUUUAAUUUUUUAUAAUUACUAA ...............((((.((((.(((((...............................(((.........))).....(((((((...((((((((((....((((........))))....))).)))))))...............((((..............))))....)))))))))))))))).))))............................................ (-16.94) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUAGUAAUUAUAAAAAAUUAAAUAAAGAGGGGAUUAAUAUGAUUAAAUUUACUGAUUUUAUUAAAGAAUUUACAGAAAGAAAACAAAGUAAGAUAAAAUUUAAGUUUCAUAUGAGUACUAAAUUUUUAGAUUUAAAUAAAUCACCAUAUGAUUGUUUAAUAGAAGAUGCUGAAGAUUGGCAGAAUUUGAAUAAUUAUAGAAAUGAAAAGGGAAAAUCUAGUAGACUUGAUGGAUAUGAUUAU ...(((((((((....(((((...............((((((((((((((....((((((((........................)))))))).))))))))...))))))...(((((.((((((.(((((....)))))....(((((((((((((.......(((..(...)..)))....)))))))))))))............)))))).)))))...)))))...))))))))) (-35.76) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 774 100 51 191 142 NC_003454:FN0962|5end_Hypothetical_cytosolic_protein_1616887..1617117_NEGATIVE 264 80 33 143 103 NC_003454:FN0606|5end_Translation_initiation_inhibitor_1261014..1261244_POSITIVE 254 46 4 112 59 NC_003454:FN0662|5end_Formiminoglutamase_1318152..1318382_POSITIVE 242 230 181 169 110 NC_003454:FN1065|5end_hypothetical_protein_1711342..1711572_POSITIVE 240 45 6 47 7 NC_003454:FN1828|5end_LSU_ribosomal_protein_L9P_317700..317930_NEGATIVE 236 79 31 77 23 NC_003454:FN1703|5end_ADP-L-glycero-D-manno-heptose-6-epimerase_198992..199222_NEGATIVE 233 80 31 184 139 NC_003454:FN2109|5end_UDP-glucose_4-epimerase_620848..621078_POSITIVE 228 79 31 201 153 NC_003454:FN1868|5end_Hypothetical_cytosolic_protein_360433..360663_NEGATIVE 224 97 58 75 30 NC_003454:FN1984|5end_Glutaredoxin-like_protein_485487..485717_POSITIVE 223 40 7 109 66 NC_003454:FN0158|5end_DNA-binding_protein_786249..786479_POSITIVE 223 46 7 96 60 NC_003454:FN0042|5end_Rod_shape-determining_protein_rodA_682129..682359_NEGATIVE 220 235 193 169 130 NC_003454:FN0316|5end_hypothetical_protein_953689..953919_NEGATIVE 220 79 32 181 125 NC_003454:FN0285|5end_RNA_binding_protein_914171..914401_NEGATIVE 219 94 65 207 176 NC_003454:FN1451|5end_cell_division_protein_FtsZ_2132710..2132940_NEGATIVE 219 56 14 184 132 NC_003454:FN1750|5end_Pyruvate-flavodoxin_oxidoreductase_247811..248041_POSITIVE 218 70 22 71 24 NC_003454:FN1380|5end_Citrate_lyase_beta_chain_2027248..2027478_POSITIVE 217 238 201 125 88 NC_003454:FN1968|5end_Hemin_transport_system_ATP-binding_protein_hmuV_467189..467419_NEGATIVE 215 169 123 103 45 NC_003454:FN0681|5end_Transcriptional_regulator,_MarR_family_1336115..1336345_POSITIVE 214 182 143 115 78 NC_003454:FN0044|5end_Shikimate_5-dehydrogenase_682701..682931_POSITIVE 214 186 156 141 112 NC_003454:FN1696|5end_UDP-4-dehydro-6-deoxy-2-acetamido-D-glucose_4-reductase_192699..192929_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 264 80 33 146 106 NC_003454:FN0605|3end_aspartate_aminotransferase_1261097..1261247_POSITIVE 254 46 4 93 40 NC_003454:FN0661|3end_hypothetical_protein_1318213..1318363_POSITIVE 242 230 181 116 57 NC_003454:FN1064|3end_hypothetical_protein_1711369..1711519_POSITIVE 223 40 7 116 73 NC_003454:FN0157|3end_DNA_repair_protein_RadA_786336..786486_POSITIVE 219 214 171 70 29 NC_003454:FN1291|3end_hypothetical_protein_1947972..1948122_NEGATIVE 218 70 22 68 21 NC_003454:FN1379|3end_Citrate_lyase_beta_chain_2027325..2027475_POSITIVE 217 238 201 128 91 NC_003454:FN1969|3end_Hemin_transport_system_permease_protein_hmuU_467186..467336_NEGATIVE 215 169 123 90 32 NC_003454:FN0680|3end_Ribulose-phosphate_3-epimerase_1336182..1336332_POSITIVE 215 235 201 39 9 NC_003454:FN0317|3end_tryptophan_synthase_subunit_beta_953819..953969_NEGATIVE 214 186 156 141 112 NC_003454:FN1697|3end_hypothetical_protein_192699..192849_NEGATIVE 213 240 209 92 62 NC_003454:FN1481|3end_Queuine_tRNA-ribosyltransferase_2162679..2162829_NEGATIVE 208 45 11 105 65 NC_003454:FN0370|3end_Signal_peptidase_I_998972..999122_NEGATIVE 206 230 190 103 59 NC_003454:FN0743|3end_ATP-dependent_helicase,_DinG_family_1403155..1403305_POSITIVE 205 181 143 151 115 NC_003454:FN0043|3end_Hypothetical_exported_24-amino_acid_repeat_protein_682818..682968_POSITIVE 201 107 61 79 22 NC_003454:FN0183|3end_Glycerol-3-phosphate_dehydrogenase_807078..807228_NEGATIVE 199 223 183 89 49 NC_003454:FN1586|3end_O-succinylbenzoate-CoA_synthase_97415..97565_NEGATIVE 198 236 191 107 61 NC_003454:FN1034|3end_Transcriptional_regulator,_TetR_family_1688345..1688495_POSITIVE 198 222 185 109 70 NC_003454:FN1898|3end_Sugar_transport_ATP-binding_protein_384986..385136_NEGATIVE 198 185 145 120 84 NC_003454:FN1810|3end_Manganese_transport_system_membrane_protein_mntB_291060..291210_NEGATIVE 197 188 147 107 58 NC_003454:FN1368|3end_COMF_operon_protein_3_2018157..2018307_NEGATIVE