Origin IGS: ataaaaactcctttcagtttaaaataattcgctgattatattataacaaaaagaactattataaagcaataatctcttttaaataattataaataagaaaaaattataacaaaaaagagttgctatgaaataatttcataacaactctcactcttaacaattatttaatt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aattaaataattgttaagagtgagagttgttatgaaattatttcatagcaactcttttttgttataattttttcttatttataattatttaaaagagattattgctttataatagttctttttgttataatataatcagcgaattattttaaactgaaaggagtttttat Mask Tandem Repeat Region ================================================ ataaaaactcctttcagtttaaaataattcgctgattatattataacaaaaagaactattataaagcaataatctcttttaaataattataaataagaaaaaattataacaaaaaagagttgctatgaaataatttcataacaactctcactcttaacaattatttaatt Find is-nt database================================================ Query_seq: FN1169:FN1170|FN1169:FN1170:L-lactate dehydrogenase:Pyruvate-flavodoxin oxidoreductase:<-<-:1828627..1828796 170 ataaaaactcctttcagtttaaaataattcgctgattatattataacaaaaagaactattataaagcaataatctcttttaaataattataaataagaaaaaattataacaaaaaagagttgctatgaaataatttcataacaactctcactcttaacaattatttaatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: FN1169:FN1170|FN1169:FN1170:L-lactate dehydrogenase:Pyruvate-flavodoxin oxidoreductase:<-<-:1828627..1828796 170 ataaaaactcctttcagtttaaaataattcgctgattatattataacaaaaagaactattataaagcaataatctcttttaaataattataaataagaaaaaattataacaaaaaagagttgctatgaaataatttcataacaactctcactcttaacaattatttaatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: FN1169:FN1170|FN1169:FN1170:L-lactate dehydrogenase:Pyruvate-flavodoxin oxidoreductase:<-<-:1828627..1828796 170 ataaaaactcctttcagtttaaaataattcgctgattatattataacaaaaagaactattataaagcaataatctcttttaaataattataaataagaaaaaattataacaaaaaagagttgctatgaaataatttcataacaactctcactcttaacaattatttaatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ataaaaactcctttcagtttaaaataattcgctgattatattataacaaaaagaactattataaagcaataatctcttttaaataattataaataagaaaaaattataacaaaaaagagttgctatgaaataatttcataacaactctcactcttaacaattatttaatt Predict ORF larger than 30AA ================================================ ataaaaactcctttcagtttaaaataattcgctgattatattataacaaaaagaactattataaagcaataatctcttttaaataattataaataagaaaaaattataacaaaaaagagttgctatgaaataatttcataacaactctcactcttaacaattatttaatt 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: 82 Start: 103 End: 132 ......................................................................................................TATTTCATAGCAACTCTTTTTTGTTATAAT...................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ ataaaaactcctttcagtttaaaataattcgctgattatattataacaaaaagaactattataaagcaataatctcttttaaataattataaataagaaaaaattataacaaaaaagagttgctatgaaataatttcataacaactctcactcttaacaattatttaatt Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 78 HP_score: -4.7 Tail_Score: -5.74288 Start: 104 End: 160 Full_Region: aattaaataa ttgttaagagtgagagttgttatgaaa tta tttcatagcaactcttttttgttataa ttttttcttatttat .......................................................................................................ttgttaagagtgagagttgttatgaaattatttcatagcaactcttttttgttataa.......... Find igs database================================================ Query_seq: FN1169:FN1170|FN1169:FN1170:L-lactate dehydrogenase:Pyruvate-flavodoxin oxidoreductase:<-<-:1828627..1828796 170 ataaaaactcctttcagtttaaaataattcgctgattatattataacaaaaagaactattataaagcaataatctcttttaaataattataaataagaaaaaattataacaaaaaagagttgctatgaaataatttcataacaactctcactcttaacaattatttaatt Intra-Species Hit: Count: 1 Min: 1 Max: 170 Len: 170 Subject: NC_003454_FN1169_FN1170|L-lactate dehydrogenase:Pyruvate-flavodoxin oxidoreductase|NEGATIVE:NEGATIVE|[1828627,1828796]|170 HSP 1 e-value: 8.0E-24 bit: 111.0 Len: 56 Query Start:1 Query End:56 Subject Strand: POSITIVE Subject Start: 1 Subject End: 56 ataaaaactcctttcagtttaaaataattcgctgattatattataacaaaaagaac.................................................................................................................. ataaaaactcctttcagtttaaaataattcgctgattatattataacaaaaagaac.................................................................................................................. HSP 2 e-value: 1.0E-22 bit: 107.0 Len: 54 Query Start:117 Query End:170 Subject Strand: POSITIVE Subject Start: 117 Subject End: 170 ....................................................................................................................gagttgctatgaaataatttcataacaactctcactcttaacaattatttaatt ....................................................................................................................gagttgctatgaaataatttcataacaactctcactcttaacaattatttaatt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUAAAAACUCCUUUCAGUUUAAAAUAAUUCGCUGAUUAUAUUAUAACAAAAAGAACUAUUAUAAAGCAAUAAUCUCUUUUAAAUAAUUAUAAAUAAGAAAAAAUUAUAACAAAAAAGAGUUGCUAUGAAAUAAUUUCAUAACAACUCUCACUCUUAACAAUUAUUUAAUU ..........((((..((((((.((((((....)))))).))).)))..)))).........................((((((((((....((((.......))))........(((((((.((((((.....)))))).)))))))..........)))))))))).. (-22.10) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAUUAAAUAAUUGUUAAGAGUGAGAGUUGUUAUGAAAUUAUUUCAUAGCAACUCUUUUUUGUUAUAAUUUUUUCUUAUUUAUAAUUAUUUAAAAGAGAUUAUUGCUUUAUAAUAGUUCUUUUUGUUAUAAUAUAAUCAGCGAAUUAUUUUAAACUGAAAGGAGUUUUUAU ..((((((((((((((((((.(((((((((((((((.....)))))))))))))))...............))))))...))))))))))))....((((((....(((((((((......))))))))).)))))).............(((((......))))).... (-38.89) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 653 80 31 171 122 NC_003454:FN1169|5end_L-lactate_dehydrogenase_1828536..1828766_NEGATIVE 237 148 107 191 149 NC_003454:FN0607|5end_metal_dependent_phosphohydrolase_1261564..1261794_POSITIVE 229 157 113 217 182 NC_003454:FN1221|5end_hypothetical_protein_1880344..1880574_POSITIVE 222 155 128 107 80 NC_003454:FN0915|5end_PTS_system,_N-acetylglucosamine-specific_IIA_component_1572037..1572267_NEGATIVE 209 40 5 115 79 NC_003454:FN1002|5end_Adenosylmethionine-8-amino-7-oxononanoate_aminotransferase_1656738..1656968_POSITIVE 200 48 7 136 97 NC_003454:FN1259|5end_Uracil-DNA_glycosylase_1915083..1915313_POSITIVE 193 155 117 68 34 NC_003454:FN1803|5end_Transcriptional_regulator,_TetR_family_284214..284444_POSITIVE 191 148 103 135 90 NC_003454:FN0626|5end_Hypothetical_cytosolic_protein_1286092..1286322_NEGATIVE 188 45 8 92 58 NC_003454:FN0952|5end_cobalamin_biosynthesis_protein_CbiG_1609502..1609732_NEGATIVE 187 49 7 91 49 NC_003454:FN0642|5end_hypothetical_protein_1299461..1299691_NEGATIVE 180 152 118 47 5 NC_003454:FN1424|5end_ACYL-COA_dehydrogenase,_short-chain_specific_2092005..2092235_NEGATIVE 180 162 123 114 69 NC_003454:FN0265|5end_Cell_division_protein_ftsX_891404..891634_POSITIVE 176 43 7 136 99 NC_003454:FN1059|5end_Branched_chain_amino_acid_transport_system_II_carrier_protein_1705663..1705893_POSITIVE 175 48 7 134 98 NC_003454:FN1279|5end_Zinc_metallohydrolase,_glyoxalase_II_family_1938270..1938500_NEGATIVE 174 48 8 171 135 NC_003454:FN0663|5end_hypothetical_protein_1319286..1319516_POSITIVE 169 77 50 148 114 NC_003454:FN0924|5end_hypothetical_protein_1579253..1579483_POSITIVE 168 155 119 67 36 NC_003454:FN1537|5end_Arsenical_pump-driving_ATPase_51112..51342_NEGATIVE 166 45 8 105 67 NC_003454:FN1129|5end_Chromosome_partition_protein_smc_1774204..1774434_POSITIVE 166 157 114 105 66 NC_003454:FN0885|5end_Hemin-binding_periplasmic_protein_hmuT_precursor_1545615..1545845_NEGATIVE 166 155 118 103 74 NC_003454:FN1909|5end_UDP-3-O-[3-hydroxymyristoyl]_glucosamine_N-acyltransferase_402710..402940_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 251 135 95 69 15 NC_003454:FN1590|3end_Hypothetical_lipoprotein_100560..100710_NEGATIVE 237 148 107 66 24 NC_003454:FN0606|3end_Translation_initiation_inhibitor_1261519..1261669_POSITIVE 229 157 113 85 50 NC_003454:FN1220|3end_Cysteine_synthase_1880292..1880442_POSITIVE 222 155 128 79 52 NC_003454:FN0916|3end_hypothetical_protein_1572065..1572215_NEGATIVE 209 40 5 47 11 NC_003454:FN1001|3end_Dethiobiotin_synthetase_1656750..1656900_POSITIVE 202 150 106 86 44 NC_003454:FN2001|3end_hypothetical_protein_501298..501448_NEGATIVE 195 84 41 79 37 NC_003454:FN2120|3end_Hypothetical_exported_24-amino_acid_repeat_protein_628361..628511_NEGATIVE 191 148 103 72 27 NC_003454:FN0627|3end_Glucosamine--fructose-6-phosphate_aminotransferase_[isomerizing]_1286155..1286305_NEGATIVE 188 45 8 79 45 NC_003454:FN0953|3end_hypothetical_protein_1609515..1609665_NEGATIVE 187 49 7 118 76 NC_003454:FN0643|3end_hypothetical_protein_1299434..1299584_NEGATIVE 187 148 111 80 42 NC_003454:FN1800|3end_Peptidyl-prolyl_cis-trans_isomerase_282534..282684_POSITIVE 176 43 7 42 5 NC_003454:FN1058|3end_hypothetical_protein_1705649..1705799_POSITIVE 168 155 119 70 39 NC_003454:FN1538|3end_Arsenical_pump-driving_ATPase_51109..51259_NEGATIVE 166 155 118 78 49 NC_003454:FN1910|3end_hypothetical_protein_402735..402885_NEGATIVE 165 90 48 94 38 NC_003454:FN1423|3end_Flavoprotein_2088853..2089003_NEGATIVE 165 149 107 68 23 NC_003454:FN0050|3end_Fumarate_reductase_flavoprotein_subunit_688799..688949_POSITIVE 164 149 103 90 39 NC_003454:FN1837|3end_putative_nucleotide-binding_protein_326725..326875_NEGATIVE 159 149 113 85 54 NC_003454:FN1391|3end_Acetyltransferase_2049133..2049283_POSITIVE 157 37 6 65 26 NC_003454:FN0950|3end_Precorrin-6X_reductase_1606975..1607125_NEGATIVE 157 150 121 65 35 NC_003454:FN0632|3end_PTS_system,_IIA_component_1290342..1290492_NEGATIVE