Origin IGS: taaaacctttcgcaatcaacgaataggcattgctctattccacgagtggtatgcaaagataagctacgagtggtaattatataaggcatattctaaaataatcttgtatggttttccataacagagaagttttagagtatgtcttaaaatttcttttagaggacttaatgaaagtattttatctcttgcattaatacaaatctatcattttaacgttatatgaaaaaagcacttactactatcattttatcagcaatgggtctgtttgcttcaacagtcagtgttgcacaagaagcccataga .........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 tctatgggcttcttgtgcaacactgactgttgaagcaaacagacccattgctgataaaatgatagtagtaagtgcttttttcatataacgttaaaatgatagatttgtattaatgcaagagataaaatactttcattaagtcctctaaaagaaattttaagacatactctaaaacttctctgttatggaaaaccatacaagattattttagaatatgccttatataattaccactcgtagcttatctttgcataccactcgtggaatagagcaatgcctattcgttgattgcgaaaggtttta Mask Tandem Repeat Region ================================================ taaaacctttcgcaatcaacgaataggcattgctctattccacgagtggtatgcaaagataagctacgagtggtaattatataaggcatattctaaaataatcttgtatggttttccataacagagaagttttagagtatgtcttaaaatttcttttagaggacttaatgaaagtattttatctcttgcattaatacaaatctatcattttaacgttatatgaaaaaagcacttactactatcattttatcagcaatgggtctgtttgcttcaacagtcagtgttgcacaagaagcccataga Find is-nt database================================================ Query_seq: PI0756:PI0757|PI0756:PI0757:50S ribosomal protein L7/L12:possible hemagglutinin/protease:->->:689041..689343 303 taaaacctttcgcaatcaacgaataggcattgctctattccacgagtggtatgcaaagataagctacgagtggtaattatataaggcatattctaaaataatcttgtatggttttccataacagagaagttttagagtatgtcttaaaatttcttttagaggacttaatgaaagtattttatctcttgcattaatacaaatctatcattttaacgttatatgaaaaaagcacttactactatcattttatcagcaatgggtctgtttgcttcaacagtcagtgttgcacaagaagcccataga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0756:PI0757|PI0756:PI0757:50S ribosomal protein L7/L12:possible hemagglutinin/protease:->->:689041..689343 303 taaaacctttcgcaatcaacgaataggcattgctctattccacgagtggtatgcaaagataagctacgagtggtaattatataaggcatattctaaaataatcttgtatggttttccataacagagaagttttagagtatgtcttaaaatttcttttagaggacttaatgaaagtattttatctcttgcattaatacaaatctatcattttaacgttatatgaaaaaagcacttactactatcattttatcagcaatgggtctgtttgcttcaacagtcagtgttgcacaagaagcccataga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0756:PI0757|PI0756:PI0757:50S ribosomal protein L7/L12:possible hemagglutinin/protease:->->:689041..689343 303 taaaacctttcgcaatcaacgaataggcattgctctattccacgagtggtatgcaaagataagctacgagtggtaattatataaggcatattctaaaataatcttgtatggttttccataacagagaagttttagagtatgtcttaaaatttcttttagaggacttaatgaaagtattttatctcttgcattaatacaaatctatcattttaacgttatatgaaaaaagcacttactactatcattttatcagcaatgggtctgtttgcttcaacagtcagtgttgcacaagaagcccataga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taaaacctttcgcaatcaacgaataggcattgctctattccacgagtggtatgcaaagataagctacgagtggtaattatataaggcatattctaaaataatcttgtatggttttccataacagagaagttttagagtatgtcttaaaatttcttttagaggacttaatgaaagtattttatctcttgcattaatacaaatctatcattttaacgttatatgaaaaaagcacttactactatcattttatcagcaatgggtctgtttgcttcaacagtcagtgttgcacaagaagcccataga Predict ORF larger than 30AA ================================================ Protein_Len: 33 Strand: + Start: 204 End: 299 ........................................................................................................................................................................................................... M I L T L Y E K S T Y Y Y H F I S N G S V C F N S Q C C T R S P * .... Protein_Len: 30 Strand: - Start: 80 End: 169 ............................................................................... I L C I R F Y D Q I T K W L L S T K S Y T K F N R K S S K M ...................................................................................................................................... Protein_Len: 45 Strand: - Start: 67 End: 201 .................................................................. S H Y N Y L A Y E L I I K Y P K G Y C L L K L T H R L I E K L P S L S L I K D R A N I C M ...................................................................................................... taaaacctttcgcaatcaacgaataggcattgctctattccacgagtggtatgcaaagataagctacgagtggtaattatataaggcatattctaaaataatcttgtatggttttccataacagagaagttttagagtatgtcttaaaatttcttttagaggacttaatgaaagtattttatctcttgcattaatacaaatctatcattttaacgttatatgaaaaaagcacttactactatcattttatcagcaatgggtctgtttgcttcaacagtcagtgttgcacaagaagcccataga 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: 81 Start: 90 End: 119 .........................................................................................ATGGAAAACCATACAAGATTATTTTAGAAT........................................................................................................................................................................................ Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ taaaacctttcgcaatcaacgaataggcattgctctattccacgagtggtatgcaaagataagctacgagtggtaattatataaggcatattctaaaataatcttgtatggttttccataacagagaagttttagagtatgtcttaaaatttcttttagaggacttaatgaaagtattttatctcttgcattaatacaaatctatcattttaacgttatatgaaaaaagcacttactactatcattttatcagcaatgggtctgtttgcttcaacagtcagtgttgcacaagaagcccataga Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI0756:PI0757|PI0756:PI0757:50S ribosomal protein L7/L12:possible hemagglutinin/protease:->->:689041..689343 303 taaaacctttcgcaatcaacgaataggcattgctctattccacgagtggtatgcaaagataagctacgagtggtaattatataaggcatattctaaaataatcttgtatggttttccataacagagaagttttagagtatgtcttaaaatttcttttagaggacttaatgaaagtattttatctcttgcattaatacaaatctatcattttaacgttatatgaaaaaagcacttactactatcattttatcagcaatgggtctgtttgcttcaacagtcagtgttgcacaagaagcccataga Intra-Species Hit: Count: 1 Min: 1 Max: 303 Len: 303 Subject: pint_PI0756_PI0757|50S ribosomal protein L7/L12:possible hemagglutinin/protease|POSITIVE:POSITIVE|[689041, 689343]|303 HSP 1 e-value: 1.0E-171 bit: 601.0 Len: 303 Query Start:1 Query End:303 Subject Strand: POSITIVE Subject Start: 1 Subject End: 303 taaaacctttcgcaatcaacgaataggcattgctctattccacgagtggtatgcaaagataagctacgagtggtaattatataaggcatattctaaaataatcttgtatggttttccataacagagaagttttagagtatgtcttaaaatttcttttagaggacttaatgaaagtattttatctcttgcattaatacaaatctatcattttaacgttatatgaaaaaagcacttactactatcattttatcagcaatgggtctgtttgcttcaacagtcagtgttgcacaagaagcccataga taaaacctttcgcaatcaacgaataggcattgctctattccacgagtggtatgcaaagataagctacgagtggtaattatataaggcatattctaaaataatcttgtatggttttccataacagagaagttttagagtatgtcttaaaatttcttttagaggacttaatgaaagtattttatctcttgcattaatacaaatctatcattttaacgttatatgaaaaaagcacttactactatcattttatcagcaatgggtctgtttgcttcaacagtcagtgttgcacaagaagcccataga Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAACCUUUCGCAAUCAACGAAUAGGCAUUGCUCUAUUCCACGAGUGGUAUGCAAAGAUAAGCUACGAGUGGUAAUUAUAUAAGGCAUAUUCUAAAAUAAUCUUGUAUGGUUUUCCAUAACAGAGAAGUUUUAGAGUAUGUCUUAAAAUUUCUUUUAGAGGACUUAAUGAAAGUAUUUUAUCUCUUGCAUUAAUACAAAUCUAUCAUUUUAACGUUAUAUGAAAAAAGCACUUACUACUAUCAUUUUAUCAGCAAUGGGUCUGUUUGCUUCAACAGUCAGUGUUGCACAAGAAGCCCAUAGA .....(((((((.......)))).)))..((((.((((((...))))))...)))).((((((.....((((((((.....((((((((((((((((((..((((.(((((....)))))...)))).))))))))))))))))))..........((((.(..((((((.(((..........))).))))))..)...))))............................)))))))).....))))))....(((((.((.((((...(((((.....)))))..)))).)))))))... (-72.60) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UCUAUGGGCUUCUUGUGCAACACUGACUGUUGAAGCAAACAGACCCAUUGCUGAUAAAAUGAUAGUAGUAAGUGCUUUUUUCAUAUAACGUUAAAAUGAUAGAUUUGUAUUAAUGCAAGAGAUAAAAUACUUUCAUUAAGUCCUCUAAAAGAAAUUUUAAGACAUACUCUAAAACUUCUCUGUUAUGGAAAACCAUACAAGAUUAUUUUAGAAUAUGCCUUAUAUAAUUACCACUCGUAGCUUAUCUUUGCAUACCACUCGUGGAAUAGAGCAAUGCCUAUUCGUUGAUUGCGAAAGGUUUUA ...(((((((..((((.(((((.....)))))..))))..)).)))))(((((.((......)).)))))..((((((((((((....(((....)))..............(((((.(((((((..(((.(((.((.((....)).)).)))....((((.((((.(((((((..(((.(((.((((....))))))))))...))))))).)))).))))..............)))..)))))))))))).......)))))).))))))..((((.(((((.....))))))))).... (-64.10) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 406 73 31 207 162 pint:PI1227|5end_conserved_hypothetical_protein;_possible_DNA-binding_protein,_histone-like_family_1148448..1148678_POSITIVE 339 298 256 180 131 pint:PI1636|5end_hypothetical_protein_1554246..1554476_POSITIVE 336 69 25 185 140 pint:PI0088|5end_S-adenosylmethionine_synthetase_86663..86893_POSITIVE 313 290 250 92 55 pint:PI1536|5end_hypothetical_protein_1455555..1455785_POSITIVE 312 70 27 98 56 pint:PI0845|5end_peptidyl-dipeptidase_778272..778502_POSITIVE 306 288 243 63 18 pint:PI0527|5end_outer_membrane_efflux_protein_482375..482605_POSITIVE 297 269 228 231 182 pint:PI0073|5end_dihydropteroate_synthase_70956..71186_POSITIVE 294 300 253 91 33 pint:PI2130|5end_DNA_polymerase_I_2077980..2078210_POSITIVE 291 41 1 103 67 pint:PI0499|5end_integrase,_C-terminal_region_460237..460467_POSITIVE 288 297 252 48 10 pint:PI2069|5end_ISPg3-related_transposase,_C-terminal_fragment_2028985..2029215_POSITIVE 288 297 252 48 10 pint:PI2070|5end_ISPg3-related_transposase,_N-terminal_fragment_2028985..2029215_POSITIVE 288 299 253 45 3 pint:PI1827|5end_peptidase,_M23/M37_family,_N-terminal_1768013..1768243_POSITIVE 288 297 252 48 10 pint:PI1817|5end_ISPg3-related_transposase_1755520..1755750_POSITIVE 288 297 252 48 10 pint:PI1591|5end_ISPg3-related_transposase_1518747..1518977_POSITIVE 288 297 252 48 10 pint:PI1303|5end_ISPg3-related_transposase_1215135..1215365_POSITIVE 288 297 252 48 10 pint:PI1017|5end_ISPg3-related_transposase,_C-terminal_region_937306..937536_POSITIVE 288 297 252 48 10 pint:PI0711|5end_ISPg3-related_transposase_647934..648164_POSITIVE 288 297 252 48 10 pint:PI0134|5end_ISPg3-related_transposase_(IS5_family)_124721..124951_POSITIVE 286 69 25 58 13 pint:PI0671|5end_hypothetical_protein_611539..611769_POSITIVE 284 49 6 55 10 pint:PI1696|5end_conserved_hypothetical_protein_1610544..1610774_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 312 70 27 62 20 pint:PI0844|3end_cytidine/deoxycytidylate_deaminase_(dCMP_deaminase)_778316..778466_POSITIVE 306 288 243 47 2 pint:PI0526|3end_hypothetical_protein_482439..482589_POSITIVE 291 41 1 125 89 pint:PI0498|3end_integrase_460339..460489_POSITIVE 284 54 11 147 81 pint:PI0675|3end_hypothetical_protein_613957..614107_POSITIVE 276 58 11 150 95 pint:PI0521|3end_hypothetical_protein_479061..479211_POSITIVE 276 276 232 127 87 pint:PI0036|3end_glutathione_peroxidase_39289..39439_POSITIVE 273 299 259 64 13 pint:PI0494|3end_hypothetical_protein_455170..455320_POSITIVE 269 297 253 38 1 pint:PI0710|3end_hypothetical_protein_648004..648154_POSITIVE 268 54 11 113 55 pint:PI1807|3end_hypothetical_protein_1742481..1742631_POSITIVE 267 89 41 97 36 pint:PI0170|3end_hypothetical_protein_163891..164041_POSITIVE 262 297 258 47 9 pint:PI1001|3end_hypothetical_protein_923922..924072_POSITIVE 262 69 23 87 41 pint:PI0503|3end_mobilizable_transposon,_excision_protein_464198..464348_POSITIVE 260 54 26 94 66 pint:PI1890|3end_cell_division_protein_FtsW_1834072..1834222_POSITIVE 258 288 253 104 70 pint:PI1827|3end_peptidase,_M23/M37_family,_N-terminal_1768602..1768752_POSITIVE 258 50 3 53 10 pint:PI0634|3end_conserved_hypothetical_protein_581121..581271_POSITIVE 257 78 36 67 25 pint:PI0452|3end_conserved_hypothetical_protein;_possible_surface_antigen_426791..426941_POSITIVE 257 60 19 60 11 pint:PI0405|3end_hypothetical_protein_372745..372895_POSITIVE 257 70 25 75 28 pint:PI0188|3end_phosphomethylpyrimidine_kinase_179670..179820_POSITIVE 254 58 17 141 99 pint:PI2086|3end_signal_peptidase_I_2043450..2043600_POSITIVE 252 288 241 133 94 pint:PI0354|3end_hypothetical_protein_326241..326391_POSITIVE