Origin IGS: ttcctctcgccgaaaatcaaatgtaaactgtgtcatcttaaccttgccgtacagcagtactgcctgcggttcgatgtcttgtttataacttgattttcttagagcggaacttgaaaagatcggagcaatccggtctttttatggaggatagtaa .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 ttactatcctccataaaaagaccggattgctccgatcttttcaagttccgctctaagaaaatcaagttataaacaagacatcgaaccgcaggcagtactgctgtacggcaaggttaagatgacacagtttacatttgattttcggcgagaggaa Mask Tandem Repeat Region ================================================ ttcctctcgccgaaaatcaaatgtaaactgtgtcatcttaaccttgccgtacagcagtactgcctgcggttcgatgtcttgtttataacttgattttcttagagcggaacttgaaaagatcggagcaatccggtctttttatggaggatagtaa Find is-nt database================================================ Query_seq: SSA_0391:SSA_0392|SSA_0391:SSA_0392:Pyruvate oxidase, putative:hypothetical protein:->->:387862..388015 154 ttcctctcgccgaaaatcaaatgtaaactgtgtcatcttaaccttgccgtacagcagtactgcctgcggttcgatgtcttgtttataacttgattttcttagagcggaacttgaaaagatcggagcaatccggtctttttatggaggatagtaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SSA_0391:SSA_0392|SSA_0391:SSA_0392:Pyruvate oxidase, putative:hypothetical protein:->->:387862..388015 154 ttcctctcgccgaaaatcaaatgtaaactgtgtcatcttaaccttgccgtacagcagtactgcctgcggttcgatgtcttgtttataacttgattttcttagagcggaacttgaaaagatcggagcaatccggtctttttatggaggatagtaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SSA_0391:SSA_0392|SSA_0391:SSA_0392:Pyruvate oxidase, putative:hypothetical protein:->->:387862..388015 154 ttcctctcgccgaaaatcaaatgtaaactgtgtcatcttaaccttgccgtacagcagtactgcctgcggttcgatgtcttgtttataacttgattttcttagagcggaacttgaaaagatcggagcaatccggtctttttatggaggatagtaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ttcctctcgccgaaaatcaaatgtaaactgtgtcatcttaaccttgccgtacagcagtactgcctgcggttcgatgtcttgtttataacttgattttcttagagcggaacttgaaaagatcggagcaatccggtctttttatggaggatagtaa Predict ORF larger than 30AA ================================================ Protein_Len: 31 Strand: + Start: 60 End: 152 ........................................................... M P A V R C L V Y N L I F L E R N L K R S E Q S G L F M E D S .. Protein_Len: 43 Strand: - Start: 1 End: 129 E E R R F D F T F Q T M K V K G Y L L V A Q P E I D Q K Y S S K R L A S S S F I P A M ......................... ttcctctcgccgaaaatcaaatgtaaactgtgtcatcttaaccttgccgtacagcagtactgcctgcggttcgatgtcttgtttataacttgattttcttagagcggaacttgaaaagatcggagcaatccggtctttttatggaggatagtaa 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================================================ ttcctctcgccgaaaatcaaatgtaaactgtgtcatcttaaccttgccgtacagcagtactgcctgcggttcgatgtcttgtttataacttgattttcttagagcggaacttgaaaagatcggagcaatccggtctttttatggaggatagtaa Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 48 HP_score: -4.6 Tail_Score: -2.62496 Start: 48 End: 73 Full_Region: TCATCTTAACCTTGC CGTACAGCAG TACTGC CTGCGGTTCG ATGTCTTGTTTATAA ...............................................CGTACAGCAGTACTGCCTGCGGTTCG................................................................................. TransTerm Strand: + Conf: 91 HP_score: -7.7 Tail_Score: -4.83615 Start: 118 End: 135 Full_Region: AGCGGAACTTGAAAA GATCGGA GCAA TCCGGTC TTTTTATGGAGGATA .....................................................................................................................GATCGGAGCAATCCGGTC................... Find igs database================================================ Query_seq: SSA_0391:SSA_0392|SSA_0391:SSA_0392:Pyruvate oxidase, putative:hypothetical protein:->->:387862..388015 154 ttcctctcgccgaaaatcaaatgtaaactgtgtcatcttaaccttgccgtacagcagtactgcctgcggttcgatgtcttgtttataacttgattttcttagagcggaacttgaaaagatcggagcaatccggtctttttatggaggatagtaa Intra-Species Hit: Count: 1 Min: 1 Max: 154 Len: 154 Subject: NC_009009_SSA_0391_SSA_0392|Pyruvate oxidase, putative:hypothetical protein|POSITIVE:POSITIVE|[387862,388015]|154 HSP 1 e-value: 2.0E-82 bit: 305.0 Len: 154 Query Start:1 Query End:154 Subject Strand: POSITIVE Subject Start: 1 Subject End: 154 ttcctctcgccgaaaatcaaatgtaaactgtgtcatcttaaccttgccgtacagcagtactgcctgcggttcgatgtcttgtttataacttgattttcttagagcggaacttgaaaagatcggagcaatccggtctttttatggaggatagtaa ttcctctcgccgaaaatcaaatgtaaactgtgtcatcttaaccttgccgtacagcagtactgcctgcggttcgatgtcttgtttataacttgattttcttagagcggaacttgaaaagatcggagcaatccggtctttttatggaggatagtaa Inter-species Hit: Count: 1 Min: 1 Max: 154 Len: 154 Subject: smit_SMT_456_SMT_457|pyruvate oxidase:hypothetical protein|POSITIVE:POSITIVE|[396152,396305]|154 HSP 1 e-value: 1.0E-53 bit: 210.0 Len: 154 Query Start:1 Query End:154 Subject Strand: POSITIVE Subject Start: 1 Subject End: 154 ttcctctcgccgaaaatcaaatgtaaactgtgtcatcttaaccttgccgtacagcagtactgcctgcggttcgatgtcttgtttataacttgattttcttagagcggaacttgaaaagatcggagcaatccggtctttttatggaggatagtaa ttcctctcgtcgaaaatcaaatttaaactgtgttatcttcaccttgccgtacttcagtactgcctgcggttcgatgccttgtttattctttgattttcttagagcgaaacttaaaaagatcggagcaatccggtctttttatggaggatagtaa Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUCCUCUCGCCGAAAAUCAAAUGUAAACUGUGUCAUCUUAACCUUGCCGUACAGCAGUACUGCCUGCGGUUCGAUGUCUUGUUUAUAACUUGAUUUUCUUAGAGCGGAACUUGAAAAGAUCGGAGCAAUCCGGUCUUUUUAUGGAGGAUAGUAA .(((((((((((((((((((.(((((((...(.((((..((((..((.((((....)))).))....)))).)))).)..)))))))..)))))))))...).))).....(((((((((((((....))))))))))))).))))))...... (-54.70) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUACUAUCCUCCAUAAAAAGACCGGAUUGCUCCGAUCUUUUCAAGUUCCGCUCUAAGAAAAUCAAGUUAUAAACAAGACAUCGAACCGCAGGCAGUACUGCUGUACGGCAAGGUUAAGAUGACACAGUUUACAUUUGAUUUUCGGCGAGAGGAA ......(((((....((((((.((((....)))).)))))).......((((....(((((((((((..(((((....((((.((((....((.((((....)))).))..))))..)))).....))))).))))))))))))))).))))). (-46.80) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 349 79 34 56 16 NC_009009:SSA_0491|5end_Alpha-ribazole-5'-phosphate_phosphatase,_putative_490961..491191_POSITIVE 344 79 31 172 121 NC_009009:SSA_1957|5end_Glycosyl_transferase_N-acetylglucosaminyltransferase,_putative_1954670..1954900_NEGATIVE 320 80 43 72 27 NC_009009:SSA_1434|5end_Conserved_uncharacterized_Firmicutes_protein_1440850..1441080_POSITIVE 319 81 42 217 175 NC_009009:SSA_0509|5end_Propanediol_utilization_protein,_putative_508024..508254_POSITIVE 317 78 35 59 12 NC_009009:SSA_1777|5end_Ribosomal_large_subunit_pseudouridine_synthase_B,_putative_1765155..1765385_NEGATIVE 306 76 33 168 121 NC_009009:SSA_0497|5end_Nickel_ABC_transporter,_putative_496922..497152_POSITIVE 305 140 95 67 19 NC_009009:SSA_0172|5end_Transcriptional_regulator,_XRE_family,_putative_169140..169370_POSITIVE 304 138 99 88 49 NC_009009:SSA_1600|5end_hypothetical_protein_1606595..1606825_NEGATIVE 303 98 54 113 64 NC_009009:SSA_1431|5end_hypothetical_protein_1438730..1438960_NEGATIVE 303 76 36 51 6 NC_009009:SSA_1072|5end_Glutamate_5-kinase,_putative_1089755..1089985_POSITIVE 300 147 101 178 128 NC_009009:SSA_2045|5end_Reductase,_putative_2048948..2049178_NEGATIVE 300 70 32 219 164 NC_009009:SSA_1445|5end_Imidazole_glycerol-phosphate_dehydratase,_putative_1447886..1448116_NEGATIVE 300 80 31 163 111 NC_009009:SSA_0486|5end_Uroporphyrinogen-III_synthase,_putative_486637..486867_POSITIVE 299 80 31 161 95 NC_009009:SSA_1680|5end_ABC-type_bacitracin_resistance_protein_A,_permease_component,_putative_1675200..1675430_NEGATIVE 298 79 31 118 60 NC_009009:SSA_0512|5end_Nicotinate-nucleotide--dimethylbenzimidazole_phosphoribosyltransferase,_putative_510439..510669_POSITIVE 298 69 29 135 95 NC_009009:SSA_0140|5end_Copper-translocating_P-type_ATPase,_putative_134626..134856_POSITIVE 297 80 31 151 86 NC_009009:SSA_1432|5end_HflX_GTPase,_putative_1439901..1440131_NEGATIVE 296 81 43 52 8 NC_009009:SSA_1893|5end_N-acetylglucosamine-6-phosphate_deacetylase,_putative_1890572..1890802_NEGATIVE 296 79 36 79 30 NC_009009:SSA_0487|5end_Delta-aminolevulinic_acid_dehydratase,_putative_487349..487579_POSITIVE 296 82 42 167 121 NC_009009:SSA_0364|5end_Serine/threonine:Na+_symporter,_putative_356348..356578_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 349 79 34 59 19 NC_009009:SSA_0490|3end_Cobalamin_5'-phosphate_synthase,_putative_491044..491194_POSITIVE 317 78 35 72 25 NC_009009:SSA_1778|3end_Segregation_and_condensation_protein_B,_putative_1765142..1765292_NEGATIVE 308 99 54 113 59 NC_009009:SSA_1245|3end_Transcriptional_regulator,_LysR_family,_putative_1269710..1269860_POSITIVE 305 98 52 79 25 NC_009009:SSA_0391|3end_Pyruvate_oxidase,_putative_387801..387951_POSITIVE 304 138 99 91 52 NC_009009:SSA_1601|3end_VacB-like_protein,_putative_1606592..1606742_NEGATIVE 298 69 29 135 95 NC_009009:SSA_0139|3end_Copper_transport_operon_or_penicillinase_transcriptional_repressor,_putative_134706..134856_POSITIVE 297 80 31 119 54 NC_009009:SSA_1433|3end_tRNA_delta(2)-isopentenylpyrophosphate_transferase,_putative_1439933..1440083_NEGATIVE 296 79 36 92 43 NC_009009:SSA_0486|3end_Uroporphyrinogen-III_synthase,_putative_487442..487592_POSITIVE 293 73 46 40 6 NC_009009:SSA_1856|3end_hypothetical_protein_1852077..1852227_NEGATIVE 290 84 41 149 104 NC_009009:SSA_1459|3end_RNA_methyltransferase,_putative_1466111..1466261_NEGATIVE 289 76 33 136 80 NC_009009:SSA_2304|3end_Conserved_uncharacterized_protein_2305185..2305335_NEGATIVE 289 138 93 141 99 NC_009009:SSA_1831|3end_hypothetical_protein_1821994..1822144_POSITIVE 286 69 42 37 4 NC_009009:SSA_2256|3end_hypothetical_protein_2251235..2251385_POSITIVE 285 69 28 77 41 NC_009009:SSA_2126|3end_hypothetical_protein_2129985..2130135_NEGATIVE 285 72 31 123 79 NC_009009:SSA_0816|3end_Copper_transport_operon_or_penicillinase_transcription_repressor,_putative_797902..798052_POSITIVE 282 69 27 81 42 NC_009009:SSA_1470|3end_3-dehydroquinate_dehydratase,_putative_1476307..1476457_NEGATIVE 282 69 23 136 75 NC_009009:SSA_0413|3end_Anthranilate/para-aminobenzoate_synthases_component_I/_Chorismate_binding_enzyme,_putative_408315..408465_NEGATIVE 280 79 36 46 5 NC_009009:SSA_1026|3end_ABC-type_multidrug_transporter,_ATPase_component,_putative_1043617..1043767_POSITIVE 280 68 27 52 5 NC_009009:SSA_0057|3end_Phosphotransferase_system_sugar-specific_EII_component,_putative_61246..61396_POSITIVE 276 90 42 56 1 NC_009009:SSA_0468|3end_Precorrin-6y_C5,15-methyltransferase-like,_putative_472418..472568_POSITIVE