Origin IGS: cttatctcctattcaaacttatgacttctattagcagaaagtgtttctaatctaaaatgatttggattacattggaagtcctttaatccctgcaaagtaatttcacgatttttgtatctaacaaatctcatttaaatctcagtcctagtattgtcaaatctcattataccatacaagagatgaaggcccaaagagcataaaaagaaagcaagaattcgctttccttaaatcactctgataagcatgcactcatctttctttatatccaaaagagagaaccgatttcattaaatttaattagttcattaattttttcttctataaatatattatctcttctcatattcattttatatccttattga .........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.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tcaataaggatataaaatgaatatgagaagagataatatatttatagaagaaaaaattaatgaactaattaaatttaatgaaatcggttctctcttttggatataaagaaagatgagtgcatgcttatcagagtgatttaaggaaagcgaattcttgctttctttttatgctctttgggccttcatctcttgtatggtataatgagatttgacaatactaggactgagatttaaatgagatttgttagatacaaaaatcgtgaaattactttgcagggattaaaggacttccaatgtaatccaaatcattttagattagaaacactttctgctaatagaagtcataagtttgaataggagataag Mask Tandem Repeat Region ================================================ cttatctcctattcaaacttatgacttctattagcagaaagtgtttctaatctaaaatgatttggattacattggaagtcctttaatccctgcaaagtaatttcacgatttttgtatctaacaaatctcatttaaatctcagtcctagtattgtcaaatctcattataccatacaagagatgaaggcccaaagagcataaaaagaaagcaagaattcgctttccttaaatcactctgataagcatgcactcatctttctttatatccaaaagagagaaccgatttcattaaatttaattagttcattaattttttcttctataaatatattatctcttctcatattcattttatatccttattga Find is-nt database================================================ Query_seq: SSA_1336:SSA_1337|SSA_1336:SSA_1337:Conserved ankyrin repeat protein, putative:hypothetical protein:<-<-:1350217..1350581 365 cttatctcctattcaaacttatgacttctattagcagaaagtgtttctaatctaaaatgatttggattacattggaagtcctttaatccctgcaaagtaatttcacgatttttgtatctaacaaatctcatttaaatctcagtcctagtattgtcaaatctcattataccatacaagagatgaaggcccaaagagcataaaaagaaagcaagaattcgctttccttaaatcactctgataagcatgcactcatctttctttatatccaaaagagagaaccgatttcattaaatttaattagttcattaattttttcttctataaatatattatctcttctcatattcattttatatccttattga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SSA_1336:SSA_1337|SSA_1336:SSA_1337:Conserved ankyrin repeat protein, putative:hypothetical protein:<-<-:1350217..1350581 365 cttatctcctattcaaacttatgacttctattagcagaaagtgtttctaatctaaaatgatttggattacattggaagtcctttaatccctgcaaagtaatttcacgatttttgtatctaacaaatctcatttaaatctcagtcctagtattgtcaaatctcattataccatacaagagatgaaggcccaaagagcataaaaagaaagcaagaattcgctttccttaaatcactctgataagcatgcactcatctttctttatatccaaaagagagaaccgatttcattaaatttaattagttcattaattttttcttctataaatatattatctcttctcatattcattttatatccttattga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SSA_1336:SSA_1337|SSA_1336:SSA_1337:Conserved ankyrin repeat protein, putative:hypothetical protein:<-<-:1350217..1350581 365 cttatctcctattcaaacttatgacttctattagcagaaagtgtttctaatctaaaatgatttggattacattggaagtcctttaatccctgcaaagtaatttcacgatttttgtatctaacaaatctcatttaaatctcagtcctagtattgtcaaatctcattataccatacaagagatgaaggcccaaagagcataaaaagaaagcaagaattcgctttccttaaatcactctgataagcatgcactcatctttctttatatccaaaagagagaaccgatttcattaaatttaattagttcattaattttttcttctataaatatattatctcttctcatattcattttatatccttattga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 1 Min: 12 Max: 125 Len: 114 Subject: UniRef90_Q2AQ58 Cluster: Hypothetical protein; n=1; Bacillus weihenstephanensis KBAB4|Rep: Hypothetical protein - Bacillus weihenstephanensis KBAB4 HSP 1 e-value: 1.0E-6 bit: 54.3 Len: 114 Query Start:12 Query End:125 Subject Strand: null Subject Start: 270 Subject End: 307 ........... F V R Y K N R E I T L Q G L K D F Q C N P N H F R L E T L S A N R S H K F E ................................................................................................................................................................................................................................................ ........... F E K Y K N R E I T L K E L K E F Q F N S D N F R L E K P S V N R S H K Y E ................................................................................................................................................................................................................................................ cttatctcctannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnntctcatttaaatctcagtcctagtattgtcaaatctcattataccatacaagagatgaaggcccaaagagcataaaaagaaagcaagaattcgctttccttaaatcactctgataagcatgcactcatctttctttatatccaaaagagagaaccgatttcattaaatttaattagttcattaattttttcttctataaatatattatctcttctcatattcattttatatccttattga Predict ORF larger than 30AA ================================================ Protein_Len: 36 Strand: + Start: 90 End: 197 ......................................................................................... M Q S N F T I F V S N K S H L N L S P S I V K S H Y T I Q E M K A Q R A ........................................................................................................................................................................ Protein_Len: 38 Strand: + Start: 252 End: 362 ........................................................................................................................................................................................................................................................... M F L Y I Q K R E P I S L N L I S S L I F S S I N I L S L L I F I L Y P Y * ... Protein_Len: 31 Strand: - Start: 157 End: 249 ............................................................................................................................................................ I E N Y W V L S S P G F L M F L F C S N A K R L D S Q Y A H M .................................................................................................................... Protein_Len: 40 Strand: - Start: 12 End: 131 ........... E F K H S R N A S L T E L R F H N P N C Q F D K L G Q L T I E R N K Y R V F R M .......................................................................................................................................................................................................................................... cttatctcctannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnntctcatttaaatctcagtcctagtattgtcaaatctcattataccatacaagagatgaaggcccaaagagcataaaaagaaagcaagaattcgctttccttaaatcactctgataagcatgcactcatctttctttatatccaaaagagagaaccgatttcattaaatttaattagttcattaattttttcttctataaatatattatctcttctcatattcattttatatccttattga 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: 85 Start: 163 End: 192 ..................................................................................................................................................................TTTGGGCCTTCATCTCTTGTATGGTATAAT............................................................................................................................................................................. Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ cttatctcctannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnntctcatttaaatctcagtcctagtattgtcaaatctcattataccatacaagagatgaaggcccaaagagcataaaaagaaagcaagaattcgctttccttaaatcactctgataagcatgcactcatctttctttatatccaaaagagagaaccgatttcattaaatttaattagttcattaattttttcttctataaatatattatctcttctcatattcattttatatccttattga Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 85 HP_score: -7.2 Tail_Score: -5.00846 Start: 204 End: 223 Full_Region: tcagagtgatttaag gaaagcga attc ttgctttc tttttatgctctttg ...........................................................................................................................................................................................................gaaagcgaattcttgctttc.............................................................................................................................................. Find igs database================================================ Query_seq: SSA_1336:SSA_1337|SSA_1336:SSA_1337:Conserved ankyrin repeat protein, putative:hypothetical protein:<-<-:1350217..1350581 365 cttatctcctannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnntctcatttaaatctcagtcctagtattgtcaaatctcattataccatacaagagatgaaggcccaaagagcataaaaagaaagcaagaattcgctttccttaaatcactctgataagcatgcactcatctttctttatatccaaaagagagaaccgatttcattaaatttaattagttcattaattttttcttctataaatatattatctcttctcatattcattttatatccttattga Intra-Species Hit: Count: 1 Min: 126 Max: 365 Len: 240 Subject: NC_009009_SSA_1336_SSA_1337|Conserved ankyrin repeat protein, putative:hypothetical protein|NEGATIVE:NEGATIVE|[1350217,1350581]|365 HSP 1 e-value: 1.0E-133 bit: 476.0 Len: 240 Query Start:126 Query End:365 Subject Strand: POSITIVE Subject Start: 126 Subject End: 365 .............................................................................................................................tctcatttaaatctcagtcctagtattgtcaaatctcattataccatacaagagatgaaggcccaaagagcataaaaagaaagcaagaattcgctttccttaaatcactctgataagcatgcactcatctttctttatatccaaaagagagaaccgatttcattaaatttaattagttcattaattttttcttctataaatatattatctcttctcatattcattttatatccttattga .............................................................................................................................tctcatttaaatctcagtcctagtattgtcaaatctcattataccatacaagagatgaaggcccaaagagcataaaaagaaagcaagaattcgctttccttaaatcactctgataagcatgcactcatctttctttatatccaaaagagagaaccgatttcattaaatttaattagttcattaattttttcttctataaatatattatctcttctcatattcattttatatccttattga Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UCUCAUUUAAAUCUCAGUCCUAGUAUUGUCAAAUCUCAUUAUACCAUACAAGAGAUGAAGGCCCAAAGAGCAUAAAAAGAAAGCAAGAAUUCGCUUUCCUUAAAUCACUCUGAUAAGCAUGCACUCAUCUUUCUUUAUAUCCAAAAGAGAGAACCGAUUUCAUUAAAUUUAAUUAGUUCAUUAAUUUUUUCUUCUAUAAAUAUAUUAUCUCUUCUCAUAUUCAUUUUAUAUCCUUAUUGA .............(((((....((((.((.............)).))))..((((((((......(((((.((((...((((((........))))))...(((((..........(....).....(((((((((.......)))))))))...)))))............................................)))))))))......))))))))........))))) (-30.42) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UCAAUAAGGAUAUAAAAUGAAUAUGAGAAGAGAUAAUAUAUUUAUAGAAGAAAAAAUUAAUGAACUAAUUAAAUUUAAUGAAAUCGGUUCUCUCUUUUGGAUAUAAAGAAAGAUGAGUGCAUGCUUAUCAGAGUGAUUUAAGGAAAGCGAAUUCUUGCUUUCUUUUUAUGCUCUUUGGGCCUUCAUCUCUUGUAUGGUAUAAUGAGAUUUGACAAUACUAGGACUGAGAUUUAAAUGAGA (((..((((...(((........(.((((((((.(((...(((((.(((.....(((((......)))))...))).)))))....))).)))))))).)...........(((((((....))))))).((((.((..(((((((((((....)))))))))))..)))))).)))..)))).(((((..((.((((((..((........))))))))..)).))))).....))).. (-46.30) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 332 134 91 106 61 NC_009009:SSA_0913|5end_Acetyltransferase,_putative_924195..924425_POSITIVE 309 124 81 207 165 NC_009009:SSA_0807|5end_GTP-binding_protein,_putative_789449..789679_POSITIVE 297 48 1 100 47 NC_009009:SSA_0877|5end_Phosphoglycolate_phosphatase,_putative_871008..871238_POSITIVE 290 132 110 102 81 NC_009009:SSA_1187|5end_Transcriptional_antiterminator,_BglG_family,_putative_1216037..1216267_NEGATIVE 287 129 83 198 152 NC_009009:SSA_0240|5end_Acetyltransferase,_GNAT_family,_putative_233410..233640_POSITIVE 276 98 51 89 36 NC_009009:SSA_2122|5end_hypothetical_protein_2127607..2127837_NEGATIVE 271 58 18 172 136 NC_009009:SSA_0777|5end_Glycogen_biosynthesis_protein_GlgD,_putative_759430..759660_POSITIVE 263 158 114 167 110 NC_009009:SSA_0097|5end_Multi_antimicrobial_extrusion_(MATE)_family_transporter,_putative_98148..98378_POSITIVE 261 56 13 130 97 NC_009009:SSA_1330|5end_hypothetical_protein_1346368..1346598_NEGATIVE 260 80 34 120 86 NC_009009:SSA_1068|5end_Transcriptional_regulator,_LysR_family_(capsular_polysaccharide_biosynthesis_regulation),_putative_1087355..1087585_POSITIVE 256 137 93 191 140 NC_009009:SSA_1487|5end_Conserved_uncharacterized_protein_1494190..1494420_NEGATIVE 255 129 82 70 12 NC_009009:SSA_0672|5end_hypothetical_protein_655191..655421_POSITIVE 255 100 53 61 18 NC_009009:SSA_0461|5end_ABC-type_multidrug_transport_system,_ATPase_and_permease_components,_putative_463059..463289_POSITIVE 254 69 25 50 2 NC_009009:SSA_0716|5end_Competence_protein,_putative_701390..701620_POSITIVE 254 94 53 51 9 NC_009009:SSA_0626|5end_hypothetical_protein_616089..616319_POSITIVE 252 98 51 73 12 NC_009009:SSA_0203|5end_hypothetical_protein_201322..201552_POSITIVE 250 100 51 56 2 NC_009009:SSA_2072|5end_Phosphatidate_cytidylyltransferase,_putative_2075603..2075833_NEGATIVE 247 143 105 51 9 NC_009009:SSA_2105|5end_hypothetical_protein_2107802..2108032_NEGATIVE 247 194 155 102 67 NC_009009:SSA_0692|5end_D-Ala-D-Ala_adding_enzyme,_putative_676370..676600_POSITIVE 247 48 3 137 88 NC_009009:SSA_0341|5end_hypothetical_protein_334731..334961_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 332 134 91 60 15 NC_009009:SSA_0912|3end_Phenylalanyl-tRNA_synthetase_alpha_chain,_putative_924229..924379_POSITIVE 299 121 81 148 114 NC_009009:SSA_0806|3end_hypothetical_protein_789478..789628_POSITIVE 290 132 110 84 63 NC_009009:SSA_1188|3end_Ribonuclease_HII,_putative_1216055..1216205_NEGATIVE 287 119 72 66 13 NC_009009:SSA_0459|3end_hypothetical_protein_462513..462663_POSITIVE 263 158 114 58 1 NC_009009:SSA_0095|3end_Threonine_synthase,_putative_98119..98269_POSITIVE 262 99 51 54 14 NC_009009:SSA_0756|3end_Alanyl-tRNA_synthetase,_putative_739434..739584_POSITIVE 255 129 82 73 15 NC_009009:SSA_0671|3end_Methylenetetrahydrofolate_dehydrogenase/methenyltetrahydrofolate_cyclohydrolase,_putative_655274..655424_POSITIVE 255 100 53 68 25 NC_009009:SSA_0460|3end_Multiple_antibiotic_resistance_operon_transcription_repressor_(MarR),_putative_463146..463296_POSITIVE 254 140 91 104 49 NC_009009:SSA_0967|3end_hypothetical_protein_976620..976770_POSITIVE 254 69 25 66 18 NC_009009:SSA_0715|3end_DNA_uptake_protein,_putative_701486..701636_POSITIVE 254 94 53 64 22 NC_009009:SSA_0625|3end_Phosphopantetheine_adenylyltransferase_616182..616332_POSITIVE 252 98 51 73 12 NC_009009:SSA_0202|3end_hypothetical_protein_201402..201552_POSITIVE 249 95 52 151 106 NC_009009:SSA_1019|3end_Collagen-binding_surface_protein,_putative_1035377..1035527_POSITIVE 247 62 34 32 4 NC_009009:SSA_1331|3end_Conserved_uncharacterized_protein_1346473..1346623_NEGATIVE 242 138 94 119 61 NC_009009:SSA_0199|3end_GTP_cyclohydrolase_I,_putative_198910..199060_POSITIVE 241 125 81 111 63 NC_009009:SSA_2211|3end_Transmembrane_protein,_putative_2211499..2211649_NEGATIVE 241 127 91 147 98 NC_009009:SSA_0217|3end_Two-component_system_transcriptional_regulator_(CheY_domain_and_HTH-like_DNA-binding_domain),_putative_213946..214096_POSITIVE 237 134 95 63 14 NC_009009:SSA_0689|3end_Penicillin-binding_protein_2B,_putative_674408..674558_POSITIVE 234 119 78 112 72 NC_009009:SSA_0891|3end_3-carboxymuconate_cyclase,_putative_883023..883173_NEGATIVE 233 69 22 47 11 NC_009009:SSA_2107|3end_Glucosamine--fructose-6-phosphate_aminotransferase_[isomerizing],_putative_2109295..2109445_NEGATIVE