Origin IGS: taaaccgccgttcaaacaatacgaaaatcccgatttcaacgttgaaatcgggattttttatttcgtagattcaataaaacaacattgccctatatatcaattcagcagaagaaacgataacattgcagttgttcttgttgagattcgataaagctgaaaatacagcaatgttatctatcatataagcagaaaaacagcaaaaagtatgtaaatatttttcacaagaacatctattacttaactgccttattatcaagactttccaaaacctattgtttta .........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 taaaacaataggttttggaaagtcttgataataaggcagttaagtaatagatgttcttgtgaaaaatatttacatactttttgctgtttttctgcttatatgatagataacattgctgtattttcagctttatcgaatctcaacaagaacaactgcaatgttatcgtttcttctgctgaattgatatatagggcaatgttgttttattgaatctacgaaataaaaaatcccgatttcaacgttgaaatcgggattttcgtattgtttgaacggcggttta Mask Tandem Repeat Region ================================================ taaaccgccgttcaaacaatacgaaaatcccgatttcaacgttgaaatcgggattttttatttcgtagattcaataaaacaacattgccctatatatcaattcagcagaagaaacgataacattgcagttgttcttgttgagattcgataaagctgaaaatacagcaatgttatctatcatataagcagaaaaacagcaaaaagtatgtaaatatttttcacaagaacatctattacttaactgccttattatcaagactttccaaaacctattgtttta Find is-nt database================================================ Query_seq: PI2127:PI2128|PI2127:PI2128:deoxyribose-phosphate aldolase:hypothetical protein:->->:2076372..2076651 280 taaaccgccgttcaaacaatacgaaaatcccgatttcaacgttgaaatcgggattttttatttcgtagattcaataaaacaacattgccctatatatcaattcagcagaagaaacgataacattgcagttgttcttgttgagattcgataaagctgaaaatacagcaatgttatctatcatataagcagaaaaacagcaaaaagtatgtaaatatttttcacaagaacatctattacttaactgccttattatcaagactttccaaaacctattgtttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI2127:PI2128|PI2127:PI2128:deoxyribose-phosphate aldolase:hypothetical protein:->->:2076372..2076651 280 taaaccgccgttcaaacaatacgaaaatcccgatttcaacgttgaaatcgggattttttatttcgtagattcaataaaacaacattgccctatatatcaattcagcagaagaaacgataacattgcagttgttcttgttgagattcgataaagctgaaaatacagcaatgttatctatcatataagcagaaaaacagcaaaaagtatgtaaatatttttcacaagaacatctattacttaactgccttattatcaagactttccaaaacctattgtttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI2127:PI2128|PI2127:PI2128:deoxyribose-phosphate aldolase:hypothetical protein:->->:2076372..2076651 280 taaaccgccgttcaaacaatacgaaaatcccgatttcaacgttgaaatcgggattttttatttcgtagattcaataaaacaacattgccctatatatcaattcagcagaagaaacgataacattgcagttgttcttgttgagattcgataaagctgaaaatacagcaatgttatctatcatataagcagaaaaacagcaaaaagtatgtaaatatttttcacaagaacatctattacttaactgccttattatcaagactttccaaaacctattgtttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taaaccgccgttcaaacaatacgaaaatcccgatttcaacgttgaaatcgggattttttatttcgtagattcaataaaacaacattgccctatatatcaattcagcagaagaaacgataacattgcagttgttcttgttgagattcgataaagctgaaaatacagcaatgttatctatcatataagcagaaaaacagcaaaaagtatgtaaatatttttcacaagaacatctattacttaactgccttattatcaagactttccaaaacctattgtttta Predict ORF larger than 30AA ================================================ Protein_Len: 34 Strand: + Start: 47 End: 148 .............................................. M G I F Y F V D S I K Q H C P I Y Q F S R R N D N I A V V L V E I R .................................................................................................................................... Protein_Len: 33 Strand: + Start: 84 End: 182 ................................................................................... M A L Y I N S A E E T I T L Q L F L L R F D K A E N T A M L S I I .................................................................................................. Protein_Len: 44 Strand: + Start: 148 End: 279 ................................................................................................................................................... M K L K I Q Q C Y L S Y K Q K N S K K Y V N I F H K N I Y Y L T A L L S R L S K T Y C F . Protein_Len: 60 Strand: - Start: 74 End: 256 ......................................................................... F L M A R Y I L E A S S V I V N C N N K N L N S L A S F V A I N D I M Y A S F C C F T H L Y K E C S C R N S L Q R I I M ........................ taaaccgccgttcaaacaatacgaaaatcccgatttcaacgttgaaatcgggattttttatttcgtagattcaataaaacaacattgccctatatatcaattcagcagaagaaacgataacattgcagttgttcttgttgagattcgataaagctgaaaatacagcaatgttatctatcatataagcagaaaaacagcaaaaagtatgtaaatatttttcacaagaacatctattacttaactgccttattatcaagactttccaaaacctattgtttta 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================================================ taaaccgccgttcaaacaatacgaaaatcccgatttcaacgttgaaatcgggattttttatttcgtagattcaataaaacaacattgccctatatatcaattcagcagaagaaacgataacattgcagttgttcttgttgagattcgataaagctgaaaatacagcaatgttatctatcatataagcagaaaaacagcaaaaagtatgtaaatatttttcacaagaacatctattacttaactgccttattatcaagactttccaaaacctattgtttta Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 100 HP_score: -13.0 Tail_Score: -3.79668 Start: 20 End: 60 Full_Region: CCGCCGTTCAAACAA TACGAAAATCCCGATTTCA ACGT TGAAATCGGGATTTTTTA TTTCGTAGATTCAAT ...................TACGAAAATCCCGATTTCAACGTTGAAATCGGGATTTTTTA............................................................................................................................................................................................................................ TransTerm Strand: - Conf: 100 HP_score: -15.0 Tail_Score: -2.72371 Start: 23 End: 58 Full_Region: tgaatctacgaaata aaaaatcccgatttca acgt tgaaatcgggattttc gtattgtttgaacgg ......................aaaaatcccgatttcaacgttgaaatcgggattttc.............................................................................................................................................................................................................................. TransTerm Strand: - Conf: 100 HP_score: -14.9 Tail_Score: -4.52347 Start: 28 End: 53 Full_Region: ctacgaaataaaaaa tcccgatttca acgt tgaaatcggga ttttcgtattgtttg ...........................tcccgatttcaacgttgaaatcggga................................................................................................................................................................................................................................... Find igs database================================================ Query_seq: PI2127:PI2128|PI2127:PI2128:deoxyribose-phosphate aldolase:hypothetical protein:->->:2076372..2076651 280 taaaccgccgttcaaacaatacgaaaatcccgatttcaacgttgaaatcgggattttttatttcgtagattcaataaaacaacattgccctatatatcaattcagcagaagaaacgataacattgcagttgttcttgttgagattcgataaagctgaaaatacagcaatgttatctatcatataagcagaaaaacagcaaaaagtatgtaaatatttttcacaagaacatctattacttaactgccttattatcaagactttccaaaacctattgtttta Intra-Species Hit: Count: 1 Min: 1 Max: 280 Len: 280 Subject: pint_PI2127_PI2128|deoxyribose-phosphate aldolase:hypothetical protein|POSITIVE:POSITIVE|[2076372,2076651]|280 HSP 1 e-value: 1.0E-157 bit: 555.0 Len: 280 Query Start:1 Query End:280 Subject Strand: POSITIVE Subject Start: 1 Subject End: 280 taaaccgccgttcaaacaatacgaaaatcccgatttcaacgttgaaatcgggattttttatttcgtagattcaataaaacaacattgccctatatatcaattcagcagaagaaacgataacattgcagttgttcttgttgagattcgataaagctgaaaatacagcaatgttatctatcatataagcagaaaaacagcaaaaagtatgtaaatatttttcacaagaacatctattacttaactgccttattatcaagactttccaaaacctattgtttta taaaccgccgttcaaacaatacgaaaatcccgatttcaacgttgaaatcgggattttttatttcgtagattcaataaaacaacattgccctatatatcaattcagcagaagaaacgataacattgcagttgttcttgttgagattcgataaagctgaaaatacagcaatgttatctatcatataagcagaaaaacagcaaaaagtatgtaaatatttttcacaagaacatctattacttaactgccttattatcaagactttccaaaacctattgtttta HSP 2 e-value: 2.0E-10 bit: 67.9 Len: 34 Query Start:24 Query End:57 Subject Strand: NEGATIVE Subject Start: 24 Subject End: 57 .......................aaaatcccgatttcaacgttgaaatcgggatttt............................................................................................................................................................................................................................... .......................aaaatcccgatttcaacgttgaaatcgggatttt............................................................................................................................................................................................................................... Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAACCGCCGUUCAAACAAUACGAAAAUCCCGAUUUCAACGUUGAAAUCGGGAUUUUUUAUUUCGUAGAUUCAAUAAAACAACAUUGCCCUAUAUAUCAAUUCAGCAGAAGAAACGAUAACAUUGCAGUUGUUCUUGUUGAGAUUCGAUAAAGCUGAAAAUACAGCAAUGUUAUCUAUCAUAUAAGCAGAAAAACAGCAAAAAGUAUGUAAAUAUUUUUCACAAGAACAUCUAUUACUUAACUGCCUUAUUAUCAAGACUUUCCAAAACCUAUUGUUUUA ...................(((((((((((((((((((....))))))))))))......))))))).......((((((((..((((...((......))...)))).......(((((.(..((((((((((((((...(((..(((((.((((......))))....))))).)))....................((((((((....)))))))).)))))))))...........)))))..).)))))..................)))))))) (-58.60) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAACAAUAGGUUUUGGAAAGUCUUGAUAAUAAGGCAGUUAAGUAAUAGAUGUUCUUGUGAAAAAUAUUUACAUACUUUUUGCUGUUUUUCUGCUUAUAUGAUAGAUAACAUUGCUGUAUUUUCAGCUUUAUCGAAUCUCAACAAGAACAACUGCAAUGUUAUCGUUUCUUCUGCUGAAUUGAUAUAUAGGGCAAUGUUGUUUUAUUGAAUCUACGAAAUAAAAAAUCCCGAUUUCAACGUUGAAAUCGGGAUUUUCGUAUUGUUUGAACGGCGGUUUA ((((((.....))))))..(((...((((((((..(((((...........(((((((((((((((((....((.......)).)))))))).........(((.(((((....((((......)))).)))))..)))...))))))))))))))..))))))))...)))((((((....(((..((((((((....))))))))...)))....(((((((((((((((((((((....)))))))))))))))....))))))...)))))).... (-71.60) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 444 225 181 199 155 pint:PI1253|5end_hypothetical_protein_1175516..1175746_POSITIVE 407 279 234 203 158 pint:PI0695|5end_xanthine/uracil_permease_family_protein_631413..631643_POSITIVE 370 279 234 213 168 pint:PI0090|5end_amidophosphoribosyltransferase_88379..88609_POSITIVE 355 279 231 162 114 pint:PI0887|5end_hypothetical_protein_817536..817766_POSITIVE 345 250 203 183 135 pint:PI1982|5end_conserved_hypothetical_protein_1938439..1938669_POSITIVE 342 247 202 165 120 pint:PI1890|5end_cell_division_protein_FtsW_1832886..1833116_POSITIVE 340 167 125 79 36 pint:PI1985|5end_hypothetical_protein_1940291..1940521_POSITIVE 339 229 187 230 188 pint:PI0682|5end_hypothetical_protein_618972..619202_POSITIVE 339 279 231 55 7 pint:PI0119|5end_hypothetical_protein_111506..111736_POSITIVE 337 248 201 181 136 pint:PI0096|5end_glycerol-3-phosphate_cytidylyltransferase_91885..92115_POSITIVE 331 250 201 171 123 pint:PI0949|5end_endonuclease_882264..882494_POSITIVE 316 227 184 227 191 pint:PI0286|5end_ISPg3-related_transposase_271833..272063_POSITIVE 315 235 197 225 187 pint:PI1100|5end_conserved_hypothetical_protein;_possible_rhodanese-domain_protein_1023910..1024140_POSITIVE 311 247 201 110 65 pint:PI0991|5end_conserved_hypothetical_protein_915309..915539_POSITIVE 311 225 181 182 139 pint:PI0660|5end_conserved_hypothetical_protein_603438..603668_POSITIVE 307 227 181 222 176 pint:PI1065|5end_hypothetical_protein_983382..983612_POSITIVE 303 230 196 124 94 pint:PI1333|5end_conserved_hypothetical_protein_1250777..1251007_POSITIVE 299 279 234 162 117 pint:PI0653|5end_hypothetical_protein_596046..596276_POSITIVE 299 230 182 188 141 pint:PI0038|5end_transcriptional_regulator,_LysR_family_39578..39808_POSITIVE 295 50 3 79 28 pint:PI1609|5end_Na+/H+_anti-porter_1536058..1536288_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 551 67 21 71 25 pint:PI2127|3end_deoxyribose-phosphate_aldolase_2076311..2076461_POSITIVE 370 279 234 109 64 pint:PI0089|3end_hypothetical_protein_88355..88505_POSITIVE 369 237 191 55 8 pint:PI1252|3end_hypothetical_protein_1175440..1175590_POSITIVE 355 279 231 109 61 pint:PI0885|3end_hypothetical_protein_817563..817713_POSITIVE 355 227 181 59 11 pint:PI0866|3end_hypothetical_protein_803993..804143_POSITIVE 339 279 231 109 61 pint:PI0118|3end_hypothetical_protein_111640..111790_POSITIVE 337 248 201 66 21 pint:PI0095|3end_hypothetical_protein_91850..92000_POSITIVE 336 279 231 136 88 pint:PI0069|3end_hypothetical_protein_67379..67529_POSITIVE 325 245 201 64 20 pint:PI1155|3end_hypothetical_protein_1080352..1080502_POSITIVE 317 279 231 97 49 pint:PI0815|3end_hypothetical_protein_754677..754827_POSITIVE 313 255 211 112 68 pint:PI1064|3end_hypothetical_protein_983324..983474_POSITIVE 311 225 181 60 17 pint:PI0659|3end_hypothetical_protein_603396..603546_POSITIVE 299 230 182 146 99 pint:PI0037|3end_hypothetical_protein_39616..39766_POSITIVE 293 279 231 97 49 pint:PI0638|3end_hypothetical_protein_582402..582552_POSITIVE 293 279 231 92 44 pint:PI0637|3end_hypothetical_protein_582397..582547_POSITIVE 288 279 231 136 88 pint:PI1308|3end_hypothetical_protein_1223717..1223867_POSITIVE 270 256 211 47 2 pint:PI1521|3end_hypothetical_protein_1441461..1441611_POSITIVE 263 138 95 56 9 pint:PI1643|3end_conserved_hypothetical_protein_1562029..1562179_POSITIVE 263 279 234 109 64 pint:PI0820|3end_hypothetical_protein_759980..760130_POSITIVE 263 279 234 48 3 pint:PI0819|3end_hypothetical_protein_759919..760069_POSITIVE