Origin IGS: gtcagcttttccttcagcttttccattgccgaaggtataaactcttttctctgtcataataaaatatgtaaatacttaaatcttttttcgtcagtgcaaatgtaacaataatttagcaaataagcaaacttttagaaaggaaagtacatcataaacttaacatctgctattaatctcttgctttattaagtttttagaattatttcttgacaatattgttcgatagtaaacggtaagtggttgctgtttatatactaaaaatagaactctattttaatgaatacataaatgattaataacgtatagcttttttatgaataaaactaccgaaaagttgtaaatatttttcgcaagagtgcatattgtttaactatctcattatcaaagctttgtaaaaccta .........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 taggttttacaaagctttgataatgagatagttaaacaatatgcactcttgcgaaaaatatttacaacttttcggtagttttattcataaaaaagctatacgttattaatcatttatgtattcattaaaatagagttctatttttagtatataaacagcaaccacttaccgtttactatcgaacaatattgtcaagaaataattctaaaaacttaataaagcaagagattaatagcagatgttaagtttatgatgtactttcctttctaaaagtttgcttatttgctaaattattgttacatttgcactgacgaaaaaagatttaagtatttacatattttattatgacagagaaaagagtttataccttcggcaatggaaaagctgaaggaaaagctgac Mask Tandem Repeat Region ================================================ gtcagcttttccttcagcttttccattgccgaaggtataaactcttttctctgtcataataaaatatgtaaatacttaaatcttttttcgtcagtgcaaatgtaacaataatttagcaaataagcaaacttttagaaaggaaagtacatcataaacttaacatctgctattaatctcttgctttattaagtttttagaattatttcttgacaatattgttcgatagtaaacggtaagtggttgctgtttatatactaaaaatagaactctattttaatgaatacataaatgattaataacgtatagcttttttatgaataaaactaccgaaaagttgtaaatatttttcgcaagagtgcatattgtttaactatctcattatcaaagctttgtaaaaccta Find is-nt database================================================ Query_seq: PI1075:PI1076|PI1075:PI1076:pyruvate phosphate dikinase:hypothetical protein:->->:998632..999032 401 gtcagcttttccttcagcttttccattgccgaaggtataaactcttttctctgtcataataaaatatgtaaatacttaaatcttttttcgtcagtgcaaatgtaacaataatttagcaaataagcaaacttttagaaaggaaagtacatcataaacttaacatctgctattaatctcttgctttattaagtttttagaattatttcttgacaatattgttcgatagtaaacggtaagtggttgctgtttatatactaaaaatagaactctattttaatgaatacataaatgattaataacgtatagcttttttatgaataaaactaccgaaaagttgtaaatatttttcgcaagagtgcatattgtttaactatctcattatcaaagctttgtaaaaccta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1075:PI1076|PI1075:PI1076:pyruvate phosphate dikinase:hypothetical protein:->->:998632..999032 401 gtcagcttttccttcagcttttccattgccgaaggtataaactcttttctctgtcataataaaatatgtaaatacttaaatcttttttcgtcagtgcaaatgtaacaataatttagcaaataagcaaacttttagaaaggaaagtacatcataaacttaacatctgctattaatctcttgctttattaagtttttagaattatttcttgacaatattgttcgatagtaaacggtaagtggttgctgtttatatactaaaaatagaactctattttaatgaatacataaatgattaataacgtatagcttttttatgaataaaactaccgaaaagttgtaaatatttttcgcaagagtgcatattgtttaactatctcattatcaaagctttgtaaaaccta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1075:PI1076|PI1075:PI1076:pyruvate phosphate dikinase:hypothetical protein:->->:998632..999032 401 gtcagcttttccttcagcttttccattgccgaaggtataaactcttttctctgtcataataaaatatgtaaatacttaaatcttttttcgtcagtgcaaatgtaacaataatttagcaaataagcaaacttttagaaaggaaagtacatcataaacttaacatctgctattaatctcttgctttattaagtttttagaattatttcttgacaatattgttcgatagtaaacggtaagtggttgctgtttatatactaaaaatagaactctattttaatgaatacataaatgattaataacgtatagcttttttatgaataaaactaccgaaaagttgtaaatatttttcgcaagagtgcatattgtttaactatctcattatcaaagctttgtaaaaccta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gtcagcttttccttcagcttttccattgccgaaggtataaactcttttctctgtcataataaaatatgtaaatacttaaatcttttttcgtcagtgcaaatgtaacaataatttagcaaataagcaaacttttagaaaggaaagtacatcataaacttaacatctgctattaatctcttgctttattaagtttttagaattatttcttgacaatattgttcgatagtaaacggtaagtggttgctgtttatatactaaaaatagaactctattttaatgaatacataaatgattaataacgtatagcttttttatgaataaaactaccgaaaagttgtaaatatttttcgcaagagtgcatattgtttaactatctcattatcaaagctttgtaaaaccta Predict ORF larger than 30AA ================================================ Protein_Len: 32 Strand: - Start: 17 End: 112 ................ S K W Q R L Y L S K E R D Y Y F I Y I S L D K K T L A F T V I M ................................................................................................................................................................................................................................................................................................. gtcagcttttccttcagcttttccattgccgaaggtataaactcttttctctgtcataataaaatatgtaaatacttaaatcttttttcgtcagtgcaaatgtaacaataatttagcaaataagcaaacttttagaaaggaaagtacatcataaacttaacatctgctattaatctcttgctttattaagtttttagaattatttcttgacaatattgttcgatagtaaacggtaagtggttgctgtttatatactaaaaatagaactctattttaatgaatacataaatgattaataacgtatagcttttttatgaataaaactaccgaaaagttgtaaatatttttcgcaagagtgcatattgtttaactatctcattatcaaagctttgtaaaaccta 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: 99 End: 128 ..................................................................................................TTTGCTTATTTGCTAAATTATTGTTACATT................................................................................................................................................................................................................................................................................. Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ gtcagcttttccttcagcttttccattgccgaaggtataaactcttttctctgtcataataaaatatgtaaatacttaaatcttttttcgtcagtgcaaatgtaacaataatttagcaaataagcaaacttttagaaaggaaagtacatcataaacttaacatctgctattaatctcttgctttattaagtttttagaattatttcttgacaatattgttcgatagtaaacggtaagtggttgctgtttatatactaaaaatagaactctattttaatgaatacataaatgattaataacgtatagcttttttatgaataaaactaccgaaaagttgtaaatatttttcgcaagagtgcatattgtttaactatctcattatcaaagctttgtaaaaccta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI1075:PI1076|PI1075:PI1076:pyruvate phosphate dikinase:hypothetical protein:->->:998632..999032 401 gtcagcttttccttcagcttttccattgccgaaggtataaactcttttctctgtcataataaaatatgtaaatacttaaatcttttttcgtcagtgcaaatgtaacaataatttagcaaataagcaaacttttagaaaggaaagtacatcataaacttaacatctgctattaatctcttgctttattaagtttttagaattatttcttgacaatattgttcgatagtaaacggtaagtggttgctgtttatatactaaaaatagaactctattttaatgaatacataaatgattaataacgtatagcttttttatgaataaaactaccgaaaagttgtaaatatttttcgcaagagtgcatattgtttaactatctcattatcaaagctttgtaaaaccta Intra-Species Hit: Count: 1 Min: 1 Max: 401 Len: 401 Subject: pint_PI1075_PI1076|pyruvate phosphate dikinase:hypothetical protein|POSITIVE:POSITIVE|[998632,999032]|401 HSP 1 e-value: 0.0 bit: 795.0 Len: 401 Query Start:1 Query End:401 Subject Strand: POSITIVE Subject Start: 1 Subject End: 401 gtcagcttttccttcagcttttccattgccgaaggtataaactcttttctctgtcataataaaatatgtaaatacttaaatcttttttcgtcagtgcaaatgtaacaataatttagcaaataagcaaacttttagaaaggaaagtacatcataaacttaacatctgctattaatctcttgctttattaagtttttagaattatttcttgacaatattgttcgatagtaaacggtaagtggttgctgtttatatactaaaaatagaactctattttaatgaatacataaatgattaataacgtatagcttttttatgaataaaactaccgaaaagttgtaaatatttttcgcaagagtgcatattgtttaactatctcattatcaaagctttgtaaaaccta gtcagcttttccttcagcttttccattgccgaaggtataaactcttttctctgtcataataaaatatgtaaatacttaaatcttttttcgtcagtgcaaatgtaacaataatttagcaaataagcaaacttttagaaaggaaagtacatcataaacttaacatctgctattaatctcttgctttattaagtttttagaattatttcttgacaatattgttcgatagtaaacggtaagtggttgctgtttatatactaaaaatagaactctattttaatgaatacataaatgattaataacgtatagcttttttatgaataaaactaccgaaaagttgtaaatatttttcgcaagagtgcatattgtttaactatctcattatcaaagctttgtaaaaccta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GUCAGCUUUUCCUUCAGCUUUUCCAUUGCCGAAGGUAUAAACUCUUUUCUCUGUCAUAAUAAAAUAUGUAAAUACUUAAAUCUUUUUUCGUCAGUGCAAAUGUAACAAUAAUUUAGCAAAUAAGCAAACUUUUAGAAAGGAAAGUACAUCAUAAACUUAACAUCUGCUAUUAAUCUCUUGCUUUAUUAAGUUUUUAGAAUUAUUUCUUGACAAUAUUGUUCGAUAGUAAACGGUAAGUGGUUGCUGUUUAUAUACUAAAAAUAGAACUCUAUUUUAAUGAAUACAUAAAUGAUUAAUAACGUAUAGCUUUUUUAUGAAUAAAACUACCGAAAAGUUGUAAAUAUUUUUCGCAAGAGUGCAUAUUGUUUAACUAUCUCAUUAUCAAAGCUUUGUAAAACCUA ...((((((.(((((.((.........)).))))).....................(((...((((((((.........................(((.((((............((......))..((((((......))))))..............)))).))).......(((((((.((((((((((...((((....)))).))).....((((((...(((((((((((....)))))))))))......(((((((....)))))))..)))))).........)))))))..(((((((((((..((........))..)))))))))))..........)))))))))))))))..)))..............))))))............ (-68.90) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGGUUUUACAAAGCUUUGAUAAUGAGAUAGUUAAACAAUAUGCACUCUUGCGAAAAAUAUUUACAACUUUUCGGUAGUUUUAUUCAUAAAAAAGCUAUACGUUAUUAAUCAUUUAUGUAUUCAUUAAAAUAGAGUUCUAUUUUUAGUAUAUAAACAGCAACCACUUACCGUUUACUAUCGAACAAUAUUGUCAAGAAAUAAUUCUAAAAACUUAAUAAAGCAAGAGAUUAAUAGCAGAUGUUAAGUUUAUGAUGUACUUUCCUUUCUAAAAGUUUGCUUAUUUGCUAAAUUAUUGUUACAUUUGCACUGACGAAAAAAGAUUUAAGUAUUUACAUAUUUUAUUAUGACAGAGAAAAGAGUUUAUACCUUCGGCAAUGGAAAAGCUGAAGGAAAAGCUGAC ..((((((......((((((((((((((((...........((((....))))..(((((((((...(((((..((((((((.........)))))))).(((((((((((.((((((((((....(((((((....))))))).))))))))))..((...........((((......))))..........((((....))))..............))....))))))).((((((((..(((..((((.(((((((........)))))..))))))..)))...........))))))))...))))..)))))...)))))))))...)))))))))))..))))).............((((((((.........)))))))).))))))... (-73.32) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 452 377 332 46 1 pint:PI1371|5end_hypothetical_protein_1292359..1292589_POSITIVE 413 388 341 180 133 pint:PI0949|5end_endonuclease_882264..882494_POSITIVE 394 380 331 175 127 pint:PI0695|5end_xanthine/uracil_permease_family_protein_631413..631643_POSITIVE 390 400 351 228 179 pint:PI0660|5end_conserved_hypothetical_protein_603438..603668_POSITIVE 386 354 311 88 42 pint:PI1437|5end_hypothetical_protein_1356088..1356318_POSITIVE 385 379 331 116 65 pint:PI0991|5end_conserved_hypothetical_protein_915309..915539_POSITIVE 377 378 331 231 184 pint:PI2030|5end_hypothetical_protein_1985601..1985831_POSITIVE 347 377 335 112 70 pint:PI0196|5end_hypothetical_protein_188435..188665_POSITIVE 345 385 341 84 40 pint:PI1804|5end_hypothetical_protein_1738109..1738339_POSITIVE 326 376 334 218 176 pint:PI1309|5end_excinuclease_ABC,_A_subunit_1223751..1223981_POSITIVE 323 372 331 206 165 pint:PI0324|5end_conserved_hypothetical_protein_303735..303965_POSITIVE 322 379 336 122 76 pint:PI2046|5end_hypothetical_protein_1999030..1999260_POSITIVE 321 400 363 231 194 pint:PI0038|5end_transcriptional_regulator,_LysR_family_39578..39808_POSITIVE 319 400 358 47 1 pint:PI0119|5end_hypothetical_protein_111506..111736_POSITIVE 312 257 213 192 136 pint:PI1273|5end_anthranilate_synthase_component_II_1192285..1192515_POSITIVE 312 130 82 194 143 pint:PI0586|5end_hypothetical_protein_533757..533987_POSITIVE 306 377 331 217 171 pint:PI0828|5end_GMP_synthase_(glutamine_amidotransferase)_764077..764307_POSITIVE 306 377 331 131 85 pint:PI0827|5end_hypothetical_protein_763991..764221_POSITIVE 305 370 324 137 91 pint:PI1333|5end_conserved_hypothetical_protein_1250777..1251007_POSITIVE 303 357 311 223 174 pint:PI1065|5end_hypothetical_protein_983382..983612_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 450 377 331 78 32 pint:PI1005|3end_hypothetical_protein_926481..926631_POSITIVE 407 375 332 151 108 pint:PI1371|3end_hypothetical_protein_1292546..1292696_POSITIVE 390 400 351 106 57 pint:PI0659|3end_hypothetical_protein_603396..603546_POSITIVE 357 353 311 151 106 pint:PI1436|3end_hypothetical_protein_1356232..1356382_POSITIVE 357 388 341 116 69 pint:PI0069|3end_hypothetical_protein_67379..67529_POSITIVE 347 376 331 77 30 pint:PI0820|3end_hypothetical_protein_759980..760130_POSITIVE 344 376 331 104 59 pint:PI1204|3end_hypothetical_protein_1124635..1124785_POSITIVE 340 367 329 65 30 pint:PI1797|3end_hypothetical_protein_1731559..1731709_POSITIVE 333 376 333 104 61 pint:PI1064|3end_hypothetical_protein_983324..983474_POSITIVE 331 385 341 47 3 pint:PI1521|3end_hypothetical_protein_1441461..1441611_POSITIVE 326 376 334 104 62 pint:PI1308|3end_hypothetical_protein_1223717..1223867_POSITIVE 322 400 351 101 52 pint:PI0118|3end_hypothetical_protein_111640..111790_POSITIVE 320 375 331 89 46 pint:PI1072|3end_hypothetical_protein_990503..990653_POSITIVE 306 377 331 105 59 pint:PI0826|3end_hypothetical_protein_764045..764195_POSITIVE 299 377 331 66 20 pint:PI1155|3end_hypothetical_protein_1080352..1080502_POSITIVE 294 372 332 78 37 pint:PI1294|3end_hypothetical_protein_1208716..1208866_POSITIVE 289 34 7 143 113 pint:PI0380|3end_conserved_hypothetical_protein_350541..350691_POSITIVE 281 400 358 101 55 pint:PI0089|3end_hypothetical_protein_88355..88505_POSITIVE 279 380 331 142 93 pint:PI1786|3end_hypothetical_protein_1718380..1718530_POSITIVE 276 388 341 136 91 pint:PI0926|3end_hypothetical_protein_857047..857197_POSITIVE