Origin IGS: aaggcgacctccaaatagtttgattaaagatattgtagcaccttaaggtatagtttacaaatattagttttctatattttgatatagtaaataactattaccttattttaaaaatgaaaaaagcacgactcaatcgtgctcattttc .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 gaaaatgagcacgattgagtcgtgcttttttcatttttaaaataaggtaatagttatttactatatcaaaatatagaaaactaatatttgtaaactataccttaaggtgctacaatatctttaatcaaactatttggaggtcgcctt Mask Tandem Repeat Region ================================================ aaggcgacctccaaatagtttgattaaagatattgtagcaccttaaggtatagtttacaaatattagttttctatattttgatatagtaaataactattaccttattttaaaaatgaaaaaagcacgactcaatcgtgctcattttc Find is-nt database================================================ Query_seq: SMT_644:SMT_645|SMT_644:SMT_645:O-acetylhomoserine (thiol)-lyase:hypothetical protein:<-<-:549962..550108 147 aaggcgacctccaaatagtttgattaaagatattgtagcaccttaaggtatagtttacaaatattagttttctatattttgatatagtaaataactattaccttattttaaaaatgaaaaaagcacgactcaatcgtgctcattttc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_644:SMT_645|SMT_644:SMT_645:O-acetylhomoserine (thiol)-lyase:hypothetical protein:<-<-:549962..550108 147 aaggcgacctccaaatagtttgattaaagatattgtagcaccttaaggtatagtttacaaatattagttttctatattttgatatagtaaataactattaccttattttaaaaatgaaaaaagcacgactcaatcgtgctcattttc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_644:SMT_645|SMT_644:SMT_645:O-acetylhomoserine (thiol)-lyase:hypothetical protein:<-<-:549962..550108 147 aaggcgacctccaaatagtttgattaaagatattgtagcaccttaaggtatagtttacaaatattagttttctatattttgatatagtaaataactattaccttattttaaaaatgaaaaaagcacgactcaatcgtgctcattttc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aaggcgacctccaaatagtttgattaaagatattgtagcaccttaaggtatagtttacaaatattagttttctatattttgatatagtaaataactattaccttattttaaaaatgaaaaaagcacgactcaatcgtgctcattttc Predict ORF larger than 30AA ================================================ aaggcgacctccaaatagtttgattaaagatattgtagcaccttaaggtatagtttacaaatattagttttctatattttgatatagtaaataactattaccttattttaaaaatgaaaaaagcacgactcaatcgtgctcattttc 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: 84 Start: 105 End: 134 ........................................................................................................ATTGAGTCGTGCTTTTTTCATTTTTAAAAT............. PromScan Matrix: RpoD-17 Strand: - Score: 83 Start: 32 End: 61 ...............................TTTGTAAACTATACCTTAAGGTGCTACAAT...................................................................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ aaggcgacctccaaatagtttgattaaagatattgtagcaccttaaggtatagtttacaaatattagttttctatattttgatatagtaaataactattaccttattttaaaaatgaaaaaagcacgactcaatcgtgctcattttc Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SMT_644:SMT_645|SMT_644:SMT_645:O-acetylhomoserine (thiol)-lyase:hypothetical protein:<-<-:549962..550108 147 aaggcgacctccaaatagtttgattaaagatattgtagcaccttaaggtatagtttacaaatattagttttctatattttgatatagtaaataactattaccttattttaaaaatgaaaaaagcacgactcaatcgtgctcattttc Intra-Species Hit: Count: 1 Min: 1 Max: 109 Len: 109 Subject: smit_SMT_644_SMT_645|O-acetylhomoserine (thiol)-lyase:hypothetical protein|NEGATIVE:NEGATIVE|[549962,550108]|147 HSP 1 e-value: 2.0E-55 bit: 216.0 Len: 109 Query Start:1 Query End:109 Subject Strand: POSITIVE Subject Start: 1 Subject End: 109 aaggcgacctccaaatagtttgattaaagatattgtagcaccttaaggtatagtttacaaatattagttttctatattttgatatagtaaataactattaccttatttt...................................... aaggcgacctccaaatagtttgattaaagatattgtagcaccttaaggtatagtttacaaatattagttttctatattttgatatagtaaataactattaccttatttt...................................... Inter-species Hit: Count: 3 Min: 1 Max: 109 Len: 109 Subject: NC_008533_SPD_1074_SPD_1075|hypothetical protein:transporter, FNT family protein, putative|NEGATIVE:NEGATIVE|[1101063,1101209]|147 HSP 1 e-value: 7.0E-27 bit: 121.0 Len: 109 Query Start:1 Query End:109 Subject Strand: POSITIVE Subject Start: 1 Subject End: 109 aaggcgacctccaaatagtttgattaaagatattgtagcaccttaaggtatagtttacaaatattagttttctatattttgatatagtaaataactattaccttatttt...................................... aaggtgacctccatattattttattaaggatattgtagcaccttgagttatagtttacaaatatcagttttctatattttgatataagaaatagctattaccttatttt...................................... Subject: NC_003098_spr1096_spr1097|O-acetylhomoserine sulfhydrylase, truncation:Formate-nitrate transporter|NEGATIVE:NEGATIVE|[1093532,1093678]|147 HSP 1 e-value: 7.0E-27 bit: 121.0 Len: 109 Query Start:1 Query End:109 Subject Strand: POSITIVE Subject Start: 1 Subject End: 109 aaggcgacctccaaatagtttgattaaagatattgtagcaccttaaggtatagtttacaaatattagttttctatattttgatatagtaaataactattaccttatttt...................................... aaggtgacctccatattattttattaaggatattgtagcaccttgagttatagtttacaaatatcagttttctatattttgatataagaaatagctattaccttatttt...................................... Subject: NC_003028_SP_1213_SP_1215|hypothetical protein:transporter, FNT family, putative|NEGATIVE:NEGATIVE|[1144104,1145605]|1502 HSP 1 e-value: 7.0E-27 bit: 121.0 Len: 109 Query Start:1 Query End:109 Subject Strand: POSITIVE Subject Start: 1356 Subject End: 1464 aaggcgacctccaaatagtttgattaaagatattgtagcaccttaaggtatagtttacaaatattagttttctatattttgatatagtaaataactattaccttatttt...................................... aaggtgacctccatattattttattaaggatattgtagcaccttgagttatagtttacaaatatcagttttctatattttgatataagaaatagctattaccttatttt...................................... Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAGGCGACCUCCAAAUAGUUUGAUUAAAGAUAUUGUAGCACCUUAAGGUAUAGUUUACAAAUAUUAGUUUUCUAUAUUUUGAUAUAGUAAAUAACUAUUACCUUAUUUU .(((.(..((.(((...((((......)))).))).))).)))((((((((((((...........((((.((((((....)))))).))))))))).))))))).... (-14.90) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAAAUAAGGUAAUAGUUAUUUACUAUAUCAAAAUAUAGAAAACUAAUAUUUGUAAACUAUACCUUAAGGUGCUACAAUAUCUUUAAUCAAACUAUUUGGAGGUCGCCUU ....(((((((.(((((.....((((((....))))))...((........)).)))))))))))).((((.......((((((((.........)))))))))))).. (-20.01) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 837 50 1 141 92 smit:SMT_644|5end_O-acetylhomoserine_(thiol)-lyase_549871..550101_NEGATIVE 287 49 1 228 172 smit:SMT_514|5end_tRNA_(guanine-N(1)-)-methyltransferase_441377..441607_POSITIVE 281 49 2 201 147 smit:SMT_1006|5end_6-pyruvoyl_tetrahydrobiopterin_synthase,_putative_946599..946829_POSITIVE 242 48 3 97 52 smit:SMT_1324|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1293801..1294031_POSITIVE 240 48 5 157 112 smit:SMT_962|5end_putative_hemin_transport_system_ATP-binding_protein_fecE_908584..908814_NEGATIVE 238 44 7 147 98 smit:SMT_1774|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1750666..1750896_NEGATIVE 237 70 28 181 142 smit:SMT_501|5end_ABC_transporter,_ATP-binding_protein_433227..433457_POSITIVE 234 49 2 107 69 smit:SMT_930|5end_ATP-dependent_RNA_helicase_884435..884665_NEGATIVE 224 42 2 89 52 smit:SMT_1023|5end_hypothetical_protein_958884..959114_NEGATIVE 221 49 1 75 13 smit:SMT_1821|5end_Mg2+_and_Co2+_transporter_1793794..1794024_POSITIVE 218 80 31 171 123 smit:SMT_1592|5end_putative_hemolysin_1579655..1579885_POSITIVE 214 50 1 231 172 smit:SMT_1083|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1020829..1021059_POSITIVE 211 39 2 135 99 smit:SMT_467|5end_UDP-N-acetylglucosamine--N-acetylmuramyl-_(pentapeptide)_pyrophosphoryl-undecaprenol_N-acetylglucosamine_transferase_404329..404559_POSITIVE 209 74 35 165 122 smit:SMT_2031|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1945761..1945991_NEGATIVE 209 74 35 103 60 smit:SMT_1767|5end_oxidoreductase,_short_chain_dehydrogenase/reductase_family_1744121..1744351_NEGATIVE 204 26 2 191 166 smit:SMT_109|5end_beta-galactosidase_53925..54155_POSITIVE 202 49 2 61 8 smit:SMT_1884|5end_hypothetical_protein_1838964..1839194_POSITIVE 202 49 2 61 8 smit:SMT_1875|5end_hypothetical_protein_1832965..1833195_POSITIVE 201 76 35 104 72 smit:SMT_2039|5end_malolactic_enzyme_1950427..1950657_NEGATIVE 201 45 3 133 93 smit:SMT_324|5end_K02029_polar_amino_acid_transport_system_permease_protein_262070..262300_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 242 41 2 74 31 smit:SMT_812|3end_acetyltransferase,_GNAT_family_721664..721814_NEGATIVE 211 39 2 68 32 smit:SMT_466|3end_UDP-N-acetylmuramoylalanine--D-glutamate_ligase_404342..404492_POSITIVE 210 49 2 142 93 smit:SMT_807|3end_hypothetical_protein_predicted_by_Glimmer/Critica_716708..716858_NEGATIVE 209 74 35 101 58 smit:SMT_2032|3end_hydrolase,_alpha/beta_fold_family_1945825..1945975_NEGATIVE 209 74 35 101 58 smit:SMT_1768|3end_hydrolase,_alpha/beta_fold_family_1744123..1744273_NEGATIVE 204 26 2 59 34 smit:SMT_108|3end_hypothetical_protein_53873..54023_POSITIVE 203 47 1 80 47 smit:SMT_1124|3end_pyrrolidone-carboxylate_peptidase_1060225..1060375_NEGATIVE 203 57 16 60 27 smit:SMT_691|3end_endonuclease_III_602379..602529_NEGATIVE 201 76 35 68 36 smit:SMT_2040|3end_transcription-repair_coupling_factor_1950463..1950613_NEGATIVE 199 53 27 143 114 smit:SMT_1153|3end_alpha-mannosidase_1097383..1097533_NEGATIVE 195 48 2 144 93 smit:SMT_386|3end_branched-chain_amino_acid_transport_system_II_carrier_protein_321002..321152_POSITIVE 194 44 7 146 106 smit:SMT_1022|3end_glycine_betaine_transport_ATP-binding_protein_957992..958142_NEGATIVE 193 74 35 101 58 smit:SMT_1943|3end_alpha/beta_hydrolase_fold_1878570..1878720_NEGATIVE 192 42 5 146 92 smit:SMT_1836|3end_cytidine/deoxycytidylate_deaminase_family_protein_1804100..1804250_NEGATIVE 192 43 5 148 110 smit:SMT_963|3end_K02015_iron_complex_transport_system_permease_protein_908586..908736_NEGATIVE 186 49 2 143 95 smit:SMT_1479|3end_K02074_zinc/manganese_transport_system_ATP-binding_protein_1461253..1461403_NEGATIVE 184 39 2 80 49 smit:SMT_1667|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1657439..1657589_NEGATIVE 183 74 32 84 44 smit:SMT_1601|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1592143..1592293_POSITIVE 180 74 38 86 48 smit:SMT_180|3end_50S_ribosomal_protein_L14_120126..120276_POSITIVE 179 26 2 93 70 smit:SMT_1727|3end_uridine_kinase_1713201..1713351_POSITIVE