Origin IGS: attctttttcacctcacaaaagatactaaggccgttaaaagcaaagtgaaaataggaaaaatgacggaggggctcctgctccgagaaaatttcatccttctcacacagcttttaagtcgtgttcaattctaactatagtctaacagatctcagatacttccaccctagaatttttgtacaagatttagagggggatt .........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 aatccccctctaaatcttgtacaaaaattctagggtggaagtatctgagatctgttagactatagttagaattgaacacgacttaaaagctgtgtgagaaggatgaaattttctcggagcaggagcccctccgtcatttttcctattttcactttgcttttaacggccttagtatcttttgtgaggtgaaaaagaat Mask Tandem Repeat Region ================================================ attctttttcacctcacaaaagatactaaggccgttaaaagcaaagtgaaaataggaaaaatgacggaggggctcctgctccgagaaaatttcatccttctcacacagcttttaagtcgtgttcaattctaactatagtctaacagatctcagatacttccaccctagaatttttgtacaagatttagagggggatt Find is-nt database================================================ Query_seq: SSA_1313:SSA_1314|SSA_1313:SSA_1314:hypothetical protein:Fe-S-cluster oxidoreductase, putative:<-<-:1330639..1330835 197 attctttttcacctcacaaaagatactaaggccgttaaaagcaaagtgaaaataggaaaaatgacggaggggctcctgctccgagaaaatttcatccttctcacacagcttttaagtcgtgttcaattctaactatagtctaacagatctcagatacttccaccctagaatttttgtacaagatttagagggggatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SSA_1313:SSA_1314|SSA_1313:SSA_1314:hypothetical protein:Fe-S-cluster oxidoreductase, putative:<-<-:1330639..1330835 197 attctttttcacctcacaaaagatactaaggccgttaaaagcaaagtgaaaataggaaaaatgacggaggggctcctgctccgagaaaatttcatccttctcacacagcttttaagtcgtgttcaattctaactatagtctaacagatctcagatacttccaccctagaatttttgtacaagatttagagggggatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SSA_1313:SSA_1314|SSA_1313:SSA_1314:hypothetical protein:Fe-S-cluster oxidoreductase, putative:<-<-:1330639..1330835 197 attctttttcacctcacaaaagatactaaggccgttaaaagcaaagtgaaaataggaaaaatgacggaggggctcctgctccgagaaaatttcatccttctcacacagcttttaagtcgtgttcaattctaactatagtctaacagatctcagatacttccaccctagaatttttgtacaagatttagagggggatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 attctttttcacctcacaaaagatactaaggccgttaaaagcaaagtgaaaataggaaaaatgacggaggggctcctgctccgagaaaatttcatccttctcacacagcttttaagtcgtgttcaattctaactatagtctaacagatctcagatacttccaccctagaatttttgtacaagatttagagggggatt Predict ORF larger than 30AA ================================================ Protein_Len: 43 Strand: + Start: 1 End: 129 M L F H L T K D T K A V K S K V K I G K M T E G L L L R E N F I L L T Q L L S R V Q F .................................................................... Protein_Len: 31 Strand: - Start: 12 End: 104 ........... R V F S V L A T L L L T F I P F I V S P S R S R S F K M R R M ............................................................................................. Protein_Len: 36 Strand: - Start: 1 End: 108 N K K V E C F I S L G N F A F H F Y S F H R L P E Q E S F I E D K E C M ......................................................................................... attctttttcacctcacaaaagatactaaggccgttaaaagcaaagtgaaaataggaaaaatgacggaggggctcctgctccgagaaaatttcatccttctcacacagcttttaagtcgtgttcaattctaactatagtctaacagatctcagatacttccaccctagaatttttgtacaagatttagagggggatt 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================================================ attctttttcacctcacaaaagatactaaggccgttaaaagcaaagtgaaaataggaaaaatgacggaggggctcctgctccgagaaaatttcatccttctcacacagcttttaagtcgtgttcaattctaactatagtctaacagatctcagatacttccaccctagaatttttgtacaagatttagagggggatt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SSA_1313:SSA_1314|SSA_1313:SSA_1314:hypothetical protein:Fe-S-cluster oxidoreductase, putative:<-<-:1330639..1330835 197 attctttttcacctcacaaaagatactaaggccgttaaaagcaaagtgaaaataggaaaaatgacggaggggctcctgctccgagaaaatttcatccttctcacacagcttttaagtcgtgttcaattctaactatagtctaacagatctcagatacttccaccctagaatttttgtacaagatttagagggggatt Intra-Species Hit: Count: 1 Min: 1 Max: 197 Len: 197 Subject: NC_009009_SSA_1313_SSA_1314|hypothetical protein:Fe-S-cluster oxidoreductase, putative|NEGATIVE:NEGATIVE|[1330639,1330835]|197 HSP 1 e-value: 1.0E-108 bit: 391.0 Len: 197 Query Start:1 Query End:197 Subject Strand: POSITIVE Subject Start: 1 Subject End: 197 attctttttcacctcacaaaagatactaaggccgttaaaagcaaagtgaaaataggaaaaatgacggaggggctcctgctccgagaaaatttcatccttctcacacagcttttaagtcgtgttcaattctaactatagtctaacagatctcagatacttccaccctagaatttttgtacaagatttagagggggatt attctttttcacctcacaaaagatactaaggccgttaaaagcaaagtgaaaataggaaaaatgacggaggggctcctgctccgagaaaatttcatccttctcacacagcttttaagtcgtgttcaattctaactatagtctaacagatctcagatacttccaccctagaatttttgtacaagatttagagggggatt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUUCUUUUUCACCUCACAAAAGAUACUAAGGCCGUUAAAAGCAAAGUGAAAAUAGGAAAAAUGACGGAGGGGCUCCUGCUCCGAGAAAAUUUCAUCCUUCUCACACAGCUUUUAAGUCGUGUUCAAUUCUAACUAUAGUCUAACAGAUCUCAGAUACUUCCACCCUAGAAUUUUUGUACAAGAUUUAGAGGGGGAUU ..((((((.........))))))......(((..((((((((...((((....((((.((((......(((((....)))))......))))..))))..))))...))))))))))).((((.....(((....)))...)))).............(((.((((.(((((((.....)))))))..))))))).. (-39.80) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAUCCCCCUCUAAAUCUUGUACAAAAAUUCUAGGGUGGAAGUAUCUGAGAUCUGUUAGACUAUAGUUAGAAUUGAACACGACUUAAAAGCUGUGUGAGAAGGAUGAAAUUUUCUCGGAGCAGGAGCCCCUCCGUCAUUUUUCCUAUUUUCACUUUGCUUUUAACGGCCUUAGUAUCUUUUGUGAGGUGAAAAAGAAU ........(((..(((((..((((((...(((((((.(.....(((((...((((......))))))))).............(((((((...((((((((((.(((((.....(((((..(....).)))))..)))))))))..))))))...))))))).).)))))))....))))))))))).....))).. (-45.30) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 1023 110 61 201 152 NC_009009:SSA_1313|5end_hypothetical_protein_1330548..1330778_NEGATIVE 423 69 21 73 22 NC_009009:SSA_1258|5end_Purine_nucleoside_phosphorylase,_family_1,_putative_1284652..1284882_NEGATIVE 377 69 21 146 95 NC_009009:SSA_2005|5end_Chaperone_protein_dnaJ,_putative_2006384..2006614_NEGATIVE 341 80 32 153 106 NC_009009:SSA_1226|5end_ParC,_putative_1251233..1251463_NEGATIVE 335 109 64 222 154 NC_009009:SSA_1822|5end_hypothetical_protein_1811125..1811355_NEGATIVE 333 80 31 205 145 NC_009009:SSA_0152|5end_hypothetical_protein_145799..146029_POSITIVE 326 60 13 140 97 NC_009009:SSA_1800|5end_UDP-N-acetylmuramate--L-alanine_ligase,_putative_1782371..1782601_NEGATIVE 324 110 65 230 179 NC_009009:SSA_0470|5end_Precorrin-4_methylase,_putative_472879..473109_POSITIVE 313 76 39 203 167 NC_009009:SSA_1518|5end_Glycosyl_transferase,_putative_1524787..1525017_NEGATIVE 311 57 20 133 96 NC_009009:SSA_0914|5end_Phenylalanyl-tRNA_synthetase_beta_chain,_putative_924952..925182_POSITIVE 306 110 62 72 11 NC_009009:SSA_1605|5end_Major_facilitator_superfamily_multi-drug_resistance_efflux_pump_pmrA,_putative_1611732..1611962_NEGATIVE 306 78 31 46 2 NC_009009:SSA_0606|5end_ABC-type_antimicrobial_peptide_transport_system,_ATPase_component,_putative_594532..594762_NEGATIVE 303 83 45 190 149 NC_009009:SSA_1761|5end_Hemolysin_(containing_CBS_domains),_putative_1748777..1749007_NEGATIVE 298 109 65 200 151 NC_009009:SSA_2099|5end_ABC-type_arginine/histidine_transporter,_permease_protein,_putative_2104313..2104543_NEGATIVE 295 86 54 138 109 NC_009009:SSA_0339|5end_hypothetical_protein_333950..334180_NEGATIVE 292 66 21 142 94 NC_009009:SSA_0241|5end_Ribosomal_protein_L11_methyltransferase,_putative_234021..234251_POSITIVE 291 103 66 66 17 NC_009009:SSA_2071|5end_hypothetical_protein_2074766..2074996_NEGATIVE 282 108 62 227 150 NC_009009:SSA_1930|5end_Acetyl-CoA_carboxylase_alpha_subunit,_putative_1918547..1918777_NEGATIVE 278 109 61 215 163 NC_009009:SSA_1870|5end_Phospho-N-acetylmuramoyl-pentapeptide-_transferase,_putative_1866583..1866813_NEGATIVE 275 110 70 73 32 NC_009009:SSA_1617|5end_hypothetical_protein_1620651..1620881_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 300 80 31 89 33 NC_009009:SSA_1306|3end_Trk_transporter_NAD+_binding_protein-K+_transport,_putative_1324245..1324395_NEGATIVE 295 86 54 133 104 NC_009009:SSA_0341|3end_hypothetical_protein_333955..334105_NEGATIVE 293 169 126 130 81 NC_009009:SSA_1264|3end_hypothetical_protein_1289305..1289455_NEGATIVE 287 109 69 99 58 NC_009009:SSA_0686|3end_Fe2+/Zn2+_uptake_regulation_protein,_putative_670079..670229_POSITIVE 283 93 52 48 3 NC_009009:SSA_1762|3end_Permease,_putative_1748928..1749078_NEGATIVE 275 84 41 77 42 NC_009009:SSA_0070|3end_Acetylxylan_esterase,_putative_74914..75064_POSITIVE 274 93 62 86 52 NC_009009:SSA_1408|3end_hypothetical_protein_1420406..1420556_NEGATIVE 273 82 59 72 43 NC_009009:SSA_2203|3end_30S_ribosomal_protein_S2,_putative_2203423..2203573_NEGATIVE 271 94 54 93 36 NC_009009:SSA_2156|3end_Conserved_uncharacterized_protein_2156216..2156366_NEGATIVE 271 133 95 124 85 NC_009009:SSA_0796|3end_ABC-NBD_transporters_with_duplicated_ATPase_domains,_putative_779060..779210_POSITIVE 265 169 127 103 55 NC_009009:SSA_1725|3end_Branched-chain_amino_acid_ABC_transporter,_ATP-binding_protein,_putative_1710993..1711143_NEGATIVE 265 107 61 111 58 NC_009009:SSA_1651|3end_hypothetical_protein_1649587..1649737_NEGATIVE 265 106 68 126 84 NC_009009:SSA_0468|3end_Precorrin-6y_C5,15-methyltransferase-like,_putative_472418..472568_POSITIVE 262 111 73 140 96 NC_009009:SSA_0994|3end_Peptidase_E,_putative_995390..995540_POSITIVE 257 80 37 75 30 NC_009009:SSA_1915|3end_hypothetical_protein_1905276..1905426_NEGATIVE 257 119 76 50 11 NC_009009:SSA_1800|3end_UDP-N-acetylmuramate--L-alanine_ligase,_putative_1781037..1781187_NEGATIVE 255 106 65 59 7 NC_009009:SSA_0475|3end_CbiK_protein,_putative_478570..478720_POSITIVE 253 110 68 84 38 NC_009009:SSA_0476|3end_Precorrin-2_C20-methyltransferase,_putative_479281..479431_POSITIVE 253 109 64 55 7 NC_009009:SSA_0238|3end_hypothetical_protein_233031..233181_POSITIVE 252 101 63 44 10 NC_009009:SSA_0375|3end_D-methionine-binding_lipoprotein_(ABC-type_transporter),_putative_365209..365359_POSITIVE