Origin IGS: accttcttgtcctttccttggcaatgtgtaagtagagaaaatctgccggctgacagctggcagatttatttttatcaaatgattatcttgctggcagactagtgaaattcgaa .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 ttcgaatttcactagtctgccagcaagataatcatttgataaaaataaatctgccagctgtcagccggcagattttctctacttacacattgccaaggaaaggacaagaaggt Mask Tandem Repeat Region ================================================ accttcttgtcctttccttggcaatgtgtaagtagagaaaatctgccggctgacagctggcagatttatttttatcaaatgattatcttgctggcagactagtgaaattcgaa Find is-nt database================================================ Query_seq: SSA_1625:SSA_1626|SSA_1625:SSA_1626:Lactoylglutathione lyase, putative:DNA translocase ftsK, putative:<-<-:1627054..1627166 113 accttcttgtcctttccttggcaatgtgtaagtagagaaaatctgccggctgacagctggcagatttatttttatcaaatgattatcttgctggcagactagtgaaattcgaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SSA_1625:SSA_1626|SSA_1625:SSA_1626:Lactoylglutathione lyase, putative:DNA translocase ftsK, putative:<-<-:1627054..1627166 113 accttcttgtcctttccttggcaatgtgtaagtagagaaaatctgccggctgacagctggcagatttatttttatcaaatgattatcttgctggcagactagtgaaattcgaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SSA_1625:SSA_1626|SSA_1625:SSA_1626:Lactoylglutathione lyase, putative:DNA translocase ftsK, putative:<-<-:1627054..1627166 113 accttcttgtcctttccttggcaatgtgtaagtagagaaaatctgccggctgacagctggcagatttatttttatcaaatgattatcttgctggcagactagtgaaattcgaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 accttcttgtcctttccttggcaatgtgtaagtagagaaaatctgccggctgacagctggcagatttatttttatcaaatgattatcttgctggcagactagtgaaattcgaa Predict ORF larger than 30AA ================================================ Protein_Len: 31 Strand: + Start: 7 End: 99 ...... M S F P W Q C V S R E N L P A D S W Q I Y F Y Q M I I L L A D .............. Protein_Len: 36 Strand: - Start: 1 End: 108 G E Q G K R P L T Y T S F I Q R S V A P L N I K I L H N D Q Q C V L S M ..... accttcttgtcctttccttggcaatgtgtaagtagagaaaatctgccggctgacagctggcagatttatttttatcaaatgattatcttgctggcagactagtgaaattcgaa 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================================================ accttcttgtcctttccttggcaatgtgtaagtagagaaaatctgccggctgacagctggcagatttatttttatcaaatgattatcttgctggcagactagtgaaattcgaa Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 100 HP_score: -14.2 Tail_Score: -4.96501 Start: 42 End: 64 Full_Region: TGTAAGTAGAGAAAA TCTGCCGGCT GAC AGCTGGCAGA TTTATTTTTATCAAA .........................................TCTGCCGGCTGACAGCTGGCAGA................................................. TransTerm Strand: - Conf: 100 HP_score: -12.0 Tail_Score: -4.614 Start: 42 End: 64 Full_Region: tttgataaaaataaa tctgccagct gtc agccggcaga ttttctctacttaca .........................................tctgccagctgtcagccggcaga................................................. Find igs database================================================ Query_seq: SSA_1625:SSA_1626|SSA_1625:SSA_1626:Lactoylglutathione lyase, putative:DNA translocase ftsK, putative:<-<-:1627054..1627166 113 accttcttgtcctttccttggcaatgtgtaagtagagaaaatctgccggctgacagctggcagatttatttttatcaaatgattatcttgctggcagactagtgaaattcgaa Intra-Species Hit: Count: 1 Min: 1 Max: 113 Len: 113 Subject: NC_009009_SSA_1625_SSA_1626|Lactoylglutathione lyase, putative:DNA translocase ftsK, putative|NEGATIVE:NEGATIVE|[1627054,1627166]|113 HSP 1 e-value: 5.0E-58 bit: 224.0 Len: 113 Query Start:1 Query End:113 Subject Strand: POSITIVE Subject Start: 1 Subject End: 113 accttcttgtcctttccttggcaatgtgtaagtagagaaaatctgccggctgacagctggcagatttatttttatcaaatgattatcttgctggcagactagtgaaattcgaa accttcttgtcctttccttggcaatgtgtaagtagagaaaatctgccggctgacagctggcagatttatttttatcaaatgattatcttgctggcagactagtgaaattcgaa Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ ACCUUCUUGUCCUUUCCUUGGCAAUGUGUAAGUAGAGAAAAUCUGCCGGCUGACAGCUGGCAGAUUUAUUUUUAUCAAAUGAUUAUCUUGCUGGCAGACUAGUGAAAUUCGAA ......(((((........))))).......(((((((((((((((((((.....)))))))))))).)))))))............(..((((....))))..)........ (-30.10) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUCGAAUUUCACUAGUCUGCCAGCAAGAUAAUCAUUUGAUAAAAAUAAAUCUGCCAGCUGUCAGCCGGCAGAUUUUCUCUACUUACACAUUGCCAAGGAAAGGACAAGAAGGU ...........((.((((.((.((((....(((....)))......(((((((((.((.....)).)))))))))..............))))...))...)))).))..... (-26.40) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 987 60 11 151 102 NC_009009:SSA_1625|5end_Lactoylglutathione_lyase,_putative_1626963..1627193_NEGATIVE 377 81 43 75 37 NC_009009:SSA_1275|5end_hypothetical_protein_1297606..1297836_NEGATIVE 377 81 43 227 189 NC_009009:SSA_1274|5end_hypothetical_protein_1297454..1297684_NEGATIVE 342 60 16 52 4 NC_009009:SSA_0813|5end_Thioredoxin_reductase,_putative_795406..795636_NEGATIVE 332 60 11 165 100 NC_009009:SSA_0050|5end_Dihydroxyacetone_kinase,_phosphatase_domain_(Dak2),_putative_54612..54842_POSITIVE 329 60 11 190 142 NC_009009:SSA_1559|5end_Conserved_uncharacterized_protein_1561656..1561886_NEGATIVE 326 67 21 182 140 NC_009009:SSA_1051|5end_Spermidine/putrescine_ABC_transporter,_spermidine/putrescine-binding_protein,_putative_1065658..1065888_POSITIVE 324 79 31 194 144 NC_009009:SSA_2068|5end_Superfamily_I_DNA_and_RNA_helicases,_putative_2071311..2071541_NEGATIVE 322 74 38 184 135 NC_009009:SSA_0083|5end_hypothetical_protein_85437..85667_POSITIVE 321 60 14 87 44 NC_009009:SSA_0085|5end_V-type_sodium_ATPase,_subunit_I,_putative_85750..85980_POSITIVE 319 62 21 62 24 NC_009009:SSA_0991|5end_Deoxyribonuclease,_putative_993342..993572_NEGATIVE 314 58 12 143 98 NC_009009:SSA_1560|5end_Structural_maintenance_of_chromosome_protein_(chromosome_segregation_ATPase),_putative_1565194..1565424_NEGATIVE 314 73 35 74 33 NC_009009:SSA_0569|5end_Aspartyl/glutamyl-tRNA(Asn/Gln)_amidotransferase_subunit_C,_putative_563613..563843_POSITIVE 313 61 23 198 156 NC_009009:SSA_0443|5end_Possible_ABC-type_efflux_pump_permease_component,_putative_442877..443107_POSITIVE 310 59 19 206 171 NC_009009:SSA_0765|5end_hypothetical_protein_745519..745749_POSITIVE 305 77 38 81 33 NC_009009:SSA_0201|5end_ABC_multidrug_transporter_(3-component_subtilin_immunity_exporter),_putative_199825..200055_POSITIVE 304 84 42 194 150 NC_009009:SSA_1430|5end_Ribonuclease_Z,_putative_1438036..1438266_NEGATIVE 301 100 51 55 13 NC_009009:SSA_0812|5end_hypothetical_protein_793443..793673_POSITIVE 297 59 11 197 135 NC_009009:SSA_1643|5end_hypothetical_protein_1645269..1645499_NEGATIVE 296 88 45 63 15 NC_009009:SSA_0262|5end_ABC-type_Mn/Zn_transporter,_ATP-ase_component,_putative_256204..256434_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 324 79 31 103 53 NC_009009:SSA_2069|3end_Prolyl-tRNA_synthetase,_putative_2071402..2071552_NEGATIVE 321 60 14 97 54 NC_009009:SSA_0083|3end_hypothetical_protein_85840..85990_POSITIVE 312 48 2 70 23 NC_009009:SSA_1745|3end_General_stress_response_protein_CsbD,_putative_1731997..1732147_NEGATIVE 301 100 51 58 16 NC_009009:SSA_0811|3end_hypothetical_protein_793526..793676_POSITIVE 295 57 12 151 107 NC_009009:SSA_1561|3end_Ribonuclease_III,_putative_1565185..1565335_NEGATIVE 291 66 40 151 127 NC_009009:SSA_1630|3end_hypothetical_protein_1631508..1631658_POSITIVE 291 50 2 121 82 NC_009009:SSA_0816|3end_Copper_transport_operon_or_penicillinase_transcription_repressor,_putative_797902..798052_POSITIVE 287 50 2 148 97 NC_009009:SSA_1049|3end_ABC_transporter_membrane-spanning_permease-spermidine/putrescine_transport,_putative_1064971..1065121_POSITIVE 285 50 4 53 7 NC_009009:SSA_0470|3end_Precorrin-4_methylase,_putative_473732..473882_POSITIVE 281 60 11 54 9 NC_009009:SSA_2079|3end_Acetyltransferase,_putative_2084599..2084749_POSITIVE 279 90 42 83 30 NC_009009:SSA_2278|3end_Ukp_protein,_putative_2280410..2280560_NEGATIVE 275 86 42 91 44 NC_009009:SSA_0775|3end_1,4-alpha-glucan_branching_enzyme,_putative_758371..758521_POSITIVE 274 45 4 65 30 NC_009009:SSA_0688|3end_2,3-bisphosphoglycerate-dependent_phosphoglycerate_mutase,_putative_672132..672282_POSITIVE 273 67 27 46 7 NC_009009:SSA_0882|3end_Phosphoserine_phosphatase,_putative_877630..877780_POSITIVE 273 47 4 120 88 NC_009009:SSA_0257|3end_N-acetylmuramidase/lysin,_putative_251840..251990_POSITIVE 269 64 34 59 28 NC_009009:SSA_1753|3end_Transcriptional_regulator,_GntR_family_(repressor_of_trehalose_operon),_putative_1742740..1742890_POSITIVE 268 72 31 92 54 NC_009009:SSA_1895|3end_Ribosome-binding_factor_A,_putative_1890815..1890965_NEGATIVE 267 60 12 79 31 NC_009009:SSA_0819|3end_hypothetical_protein_801181..801331_POSITIVE 267 59 11 97 34 NC_009009:SSA_0609|3end_Transcriptional_regulator,_TetR/AcrR_family,_putative_598247..598397_NEGATIVE 264 60 16 73 22 NC_009009:SSA_1552|3end_hypothetical_protein_1555130..1555280_POSITIVE