Origin IGS: aacgttcttggtttcggcaagcgtaatggaagcccctataactggttggtgtgtaagattttccaagacgagtccacctgttacattttgtgcaaaacctataatggcgtgaaaaacaaatatagaaaaaagtatgtatcttgttcgcctcatttagcatttgacatttgaaactgcaaaaataagaaaatacaacggtctgggcaatactcaaaaatgggtaaattgttgtagtataaaataagaattatggcggtatgtattgctgtttatattaatgaaaaaaggtggaagatgtgtaaatatttttcacaagagtagctattgtctaactatttgtttatca .........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 tgataaacaaatagttagacaatagctactcttgtgaaaaatatttacacatcttccaccttttttcattaatataaacagcaatacataccgccataattcttattttatactacaacaatttacccatttttgagtattgcccagaccgttgtattttcttatttttgcagtttcaaatgtcaaatgctaaatgaggcgaacaagatacatacttttttctatatttgtttttcacgccattataggttttgcacaaaatgtaacaggtggactcgtcttggaaaatcttacacaccaaccagttataggggcttccattacgcttgccgaaaccaagaacgtt Mask Tandem Repeat Region ================================================ aacgttcttggtttcggcaagcgtaatggaagcccctataactggttggtgtgtaagattttccaagacgagtccacctgttacattttgtgcaaaacctataatggcgtgaaaaacaaatatagaaaaaagtatgtatcttgttcgcctcatttagcatttgacatttgaaactgcaaaaataagaaaatacaacggtctgggcaatactcaaaaatgggtaaattgttgtagtataaaataagaattatggcggtatgtattgctgtttatattaatgaaaaaaggtggaagatgtgtaaatatttttcacaagagtagctattgtctaactatttgtttatca Find is-nt database================================================ Query_seq: PI0754:PI0755|PI0754:PI0755:possible outer membrane receptor:hypothetical protein:->->:686485..686830 346 aacgttcttggtttcggcaagcgtaatggaagcccctataactggttggtgtgtaagattttccaagacgagtccacctgttacattttgtgcaaaacctataatggcgtgaaaaacaaatatagaaaaaagtatgtatcttgttcgcctcatttagcatttgacatttgaaactgcaaaaataagaaaatacaacggtctgggcaatactcaaaaatgggtaaattgttgtagtataaaataagaattatggcggtatgtattgctgtttatattaatgaaaaaaggtggaagatgtgtaaatatttttcacaagagtagctattgtctaactatttgtttatca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0754:PI0755|PI0754:PI0755:possible outer membrane receptor:hypothetical protein:->->:686485..686830 346 aacgttcttggtttcggcaagcgtaatggaagcccctataactggttggtgtgtaagattttccaagacgagtccacctgttacattttgtgcaaaacctataatggcgtgaaaaacaaatatagaaaaaagtatgtatcttgttcgcctcatttagcatttgacatttgaaactgcaaaaataagaaaatacaacggtctgggcaatactcaaaaatgggtaaattgttgtagtataaaataagaattatggcggtatgtattgctgtttatattaatgaaaaaaggtggaagatgtgtaaatatttttcacaagagtagctattgtctaactatttgtttatca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0754:PI0755|PI0754:PI0755:possible outer membrane receptor:hypothetical protein:->->:686485..686830 346 aacgttcttggtttcggcaagcgtaatggaagcccctataactggttggtgtgtaagattttccaagacgagtccacctgttacattttgtgcaaaacctataatggcgtgaaaaacaaatatagaaaaaagtatgtatcttgttcgcctcatttagcatttgacatttgaaactgcaaaaataagaaaatacaacggtctgggcaatactcaaaaatgggtaaattgttgtagtataaaataagaattatggcggtatgtattgctgtttatattaatgaaaaaaggtggaagatgtgtaaatatttttcacaagagtagctattgtctaactatttgtttatca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aacgttcttggtttcggcaagcgtaatggaagcccctataactggttggtgtgtaagattttccaagacgagtccacctgttacattttgtgcaaaacctataatggcgtgaaaaacaaatatagaaaaaagtatgtatcttgttcgcctcatttagcatttgacatttgaaactgcaaaaataagaaaatacaacggtctgggcaatactcaaaaatgggtaaattgttgtagtataaaataagaattatggcggtatgtattgctgtttatattaatgaaaaaaggtggaagatgtgtaaatatttttcacaagagtagctattgtctaactatttgtttatca Predict ORF larger than 30AA ================================================ Protein_Len: 34 Strand: + Start: 8 End: 109 ....... M V S A S V M E A P I T G W C V R F S K T S P P V T F C A K P I M A ............................................................................................................................................................................................................................................. Protein_Len: 41 Strand: + Start: 46 End: 168 ............................................. M V C K I F Q D E S T C Y I L C K T Y N G V K N K Y R K K Y V S C S P H L A F D I .................................................................................................................................................................................. Protein_Len: 31 Strand: - Start: 214 End: 306 ..................................................................................................................................................................................................................... F H T F Q Q L I F Y S N H R Y T N S N I N I F F P P L H T F M ........................................ Protein_Len: 37 Strand: - Start: 153 End: 263 ........................................................................................................................................................ K A N S M Q F Q L F L F I C R D P C Y E F I P L N N Y Y L I L I I A T H M ................................................................................... Protein_Len: 60 Strand: - Start: 2 End: 226 . P T Y S K G L R T W R N C K T C F R Y H R S F C I Y F F T H I K N A E N L M Q C K F S C F Y S F V V T Q A I S L F P Y M ........................................................................................................................ Protein_Len: 51 Strand: - Start: 1 End: 153 V N K T E A L T I S A G I V P Q H T L N E L V L G G T V N Q A F G I I A H F V F I S F L I Y R T R R M ................................................................................................................................................................................................. aacgttcttggtttcggcaagcgtaatggaagcccctataactggttggtgtgtaagattttccaagacgagtccacctgttacattttgtgcaaaacctataatggcgtgaaaaacaaatatagaaaaaagtatgtatcttgttcgcctcatttagcatttgacatttgaaactgcaaaaataagaaaatacaacggtctgggcaatactcaaaaatgggtaaattgttgtagtataaaataagaattatggcggtatgtattgctgtttatattaatgaaaaaaggtggaagatgtgtaaatatttttcacaagagtagctattgtctaactatttgtttatca 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================================================ aacgttcttggtttcggcaagcgtaatggaagcccctataactggttggtgtgtaagattttccaagacgagtccacctgttacattttgtgcaaaacctataatggcgtgaaaaacaaatatagaaaaaagtatgtatcttgttcgcctcatttagcatttgacatttgaaactgcaaaaataagaaaatacaacggtctgggcaatactcaaaaatgggtaaattgttgtagtataaaataagaattatggcggtatgtattgctgtttatattaatgaaaaaaggtggaagatgtgtaaatatttttcacaagagtagctattgtctaactatttgtttatca Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI0754:PI0755|PI0754:PI0755:possible outer membrane receptor:hypothetical protein:->->:686485..686830 346 aacgttcttggtttcggcaagcgtaatggaagcccctataactggttggtgtgtaagattttccaagacgagtccacctgttacattttgtgcaaaacctataatggcgtgaaaaacaaatatagaaaaaagtatgtatcttgttcgcctcatttagcatttgacatttgaaactgcaaaaataagaaaatacaacggtctgggcaatactcaaaaatgggtaaattgttgtagtataaaataagaattatggcggtatgtattgctgtttatattaatgaaaaaaggtggaagatgtgtaaatatttttcacaagagtagctattgtctaactatttgtttatca Intra-Species Hit: Count: 1 Min: 1 Max: 346 Len: 346 Subject: pint_PI0754_PI0755|possible outer membrane receptor:hypothetical protein|POSITIVE:POSITIVE|[686485,686830]|346 HSP 1 e-value: 0.0 bit: 686.0 Len: 346 Query Start:1 Query End:346 Subject Strand: POSITIVE Subject Start: 1 Subject End: 346 aacgttcttggtttcggcaagcgtaatggaagcccctataactggttggtgtgtaagattttccaagacgagtccacctgttacattttgtgcaaaacctataatggcgtgaaaaacaaatatagaaaaaagtatgtatcttgttcgcctcatttagcatttgacatttgaaactgcaaaaataagaaaatacaacggtctgggcaatactcaaaaatgggtaaattgttgtagtataaaataagaattatggcggtatgtattgctgtttatattaatgaaaaaaggtggaagatgtgtaaatatttttcacaagagtagctattgtctaactatttgtttatca aacgttcttggtttcggcaagcgtaatggaagcccctataactggttggtgtgtaagattttccaagacgagtccacctgttacattttgtgcaaaacctataatggcgtgaaaaacaaatatagaaaaaagtatgtatcttgttcgcctcatttagcatttgacatttgaaactgcaaaaataagaaaatacaacggtctgggcaatactcaaaaatgggtaaattgttgtagtataaaataagaattatggcggtatgtattgctgtttatattaatgaaaaaaggtggaagatgtgtaaatatttttcacaagagtagctattgtctaactatttgtttatca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AACGUUCUUGGUUUCGGCAAGCGUAAUGGAAGCCCCUAUAACUGGUUGGUGUGUAAGAUUUUCCAAGACGAGUCCACCUGUUACAUUUUGUGCAAAACCUAUAAUGGCGUGAAAAACAAAUAUAGAAAAAAGUAUGUAUCUUGUUCGCCUCAUUUAGCAUUUGACAUUUGAAACUGCAAAAAUAAGAAAAUACAACGGUCUGGGCAAUACUCAAAAAUGGGUAAAUUGUUGUAGUAUAAAAUAAGAAUUAUGGCGGUAUGUAUUGCUGUUUAUAUUAAUGAAAAAAGGUGGAAGAUGUGUAAAUAUUUUUCACAAGAGUAGCUAUUGUCUAACUAUUUGUUUAUCA ((((....(((((..(((((.(((..((((((..(.(((((((....))).)))).)..))))))..))).........(((((..(((((.((...((......))..))....)))))....((((((..((..(((((..(((((((....(((((....((((.....(((((.............((((((.((....))..((((((....))))))....)))))).(((((........))))))))))))))..)))))(((((....)))))...))))))))))))..))....))))))......)))))..))))).)))))..))))..... (-68.20) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAUAAACAAAUAGUUAGACAAUAGCUACUCUUGUGAAAAAUAUUUACACAUCUUCCACCUUUUUUCAUUAAUAUAAACAGCAAUACAUACCGCCAUAAUUCUUAUUUUAUACUACAACAAUUUACCCAUUUUUGAGUAUUGCCCAGACCGUUGUAUUUUCUUAUUUUUGCAGUUUCAAAUGUCAAAUGCUAAAUGAGGCGAACAAGAUACAUACUUUUUUCUAUAUUUGUUUUUCACGCCAUUAUAGGUUUUGCACAAAAUGUAACAGGUGGACUCGUCUUGGAAAAUCUUACACACCAACCAGUUAUAGGGGCUUCCAUUACGCUUGCCGAAACCAAGAACGUU .....(((...((((((.....)))))).(((((.(..................(((((((.((..((((..........(((((((........((((........))))....(((.(((......))).))).)))))))..(((((...........((((((..(((....(....).....))).))))))((((...((((((.(((..........))).))))))...))))......))))).......)))).)).)))))))..(((..(((((..(((((.((........))..)))))..)))))..)))..........))))))..))) (-54.50) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 494 340 293 118 71 pint:PI2046|5end_hypothetical_protein_1999030..1999260_POSITIVE 406 316 280 218 182 pint:PI0821|5end_conserved_hypothetical_protein_760063..760293_POSITIVE 389 328 286 106 54 pint:PI0024|5end_hypothetical_protein_28378..28608_POSITIVE 378 330 287 196 153 pint:PI0660|5end_conserved_hypothetical_protein_603438..603668_POSITIVE 377 319 279 56 15 pint:PI1804|5end_hypothetical_protein_1738109..1738339_POSITIVE 363 328 285 227 182 pint:PI1100|5end_conserved_hypothetical_protein;_possible_rhodanese-domain_protein_1023910..1024140_POSITIVE 356 328 281 158 109 pint:PI0949|5end_endonuclease_882264..882494_POSITIVE 340 334 292 139 97 pint:PI1333|5end_conserved_hypothetical_protein_1250777..1251007_POSITIVE 336 299 252 213 163 pint:PI0410|5end_glutamyl-tRNA_synthetase_(glutamate--tRNA_ligase)_375947..376177_POSITIVE 328 50 3 82 32 pint:PI2086|5end_signal_peptidase_I_2041835..2042065_POSITIVE 328 234 193 72 32 pint:PI0989|5end_mannose-1-phosphate_guanylyltransferase_912833..913063_POSITIVE 326 319 277 94 48 pint:PI0991|5end_conserved_hypothetical_protein_915309..915539_POSITIVE 320 328 286 168 129 pint:PI0090|5end_amidophosphoribosyltransferase_88379..88609_POSITIVE 317 340 293 85 37 pint:PI1295|5end_hypothetical_protein_1208636..1208866_POSITIVE 317 327 293 231 199 pint:PI1065|5end_hypothetical_protein_983382..983612_POSITIVE 316 338 291 130 84 pint:PI0653|5end_hypothetical_protein_596046..596276_POSITIVE 314 333 293 175 135 pint:PI1959|5end_hypothetical_protein_1917708..1917938_POSITIVE 313 340 291 188 131 pint:PI1272|5end_possible_transcriptional_regulator_1191702..1191932_POSITIVE 313 328 282 120 68 pint:PI0575|5end_hypothetical_protein_519561..519791_POSITIVE 312 333 293 175 135 pint:PI1982|5end_conserved_hypothetical_protein_1938439..1938669_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 406 336 292 88 45 pint:PI1072|3end_hypothetical_protein_990503..990653_POSITIVE 406 316 280 55 19 pint:PI0820|3end_hypothetical_protein_759980..760130_POSITIVE 388 338 293 104 61 pint:PI1064|3end_hypothetical_protein_983324..983474_POSITIVE 378 330 287 74 31 pint:PI0659|3end_hypothetical_protein_603396..603546_POSITIVE 367 328 284 150 106 pint:PI0119|3end_hypothetical_protein_111723..111873_POSITIVE 367 328 284 67 23 pint:PI0118|3end_hypothetical_protein_111640..111790_POSITIVE 362 340 301 37 1 pint:PI1521|3end_hypothetical_protein_1441461..1441611_POSITIVE 320 328 286 64 25 pint:PI0089|3end_hypothetical_protein_88355..88505_POSITIVE 319 340 298 107 64 pint:PI1204|3end_hypothetical_protein_1124635..1124785_POSITIVE 317 340 293 85 37 pint:PI1294|3end_hypothetical_protein_1208716..1208866_POSITIVE 305 323 286 62 25 pint:PI1797|3end_hypothetical_protein_1731559..1731709_POSITIVE 305 338 292 65 20 pint:PI0095|3end_hypothetical_protein_91850..92000_POSITIVE 295 325 282 64 21 pint:PI0866|3end_hypothetical_protein_803993..804143_POSITIVE 292 340 292 130 81 pint:PI0926|3end_hypothetical_protein_857047..857197_POSITIVE 290 107 64 64 24 pint:PI0240|3end_conserved_hypothetical_protein_239342..239492_POSITIVE 289 57 16 57 13 pint:PI0117|3end_ribonuclease_HI_111314..111464_POSITIVE 287 55 16 88 54 pint:PI1395|3end_hypothetical_protein_1314407..1314557_POSITIVE 285 326 286 53 16 pint:PI1252|3end_hypothetical_protein_1175440..1175590_POSITIVE 285 49 3 80 34 pint:PI0629|3end_heat_shock_protein_15_577122..577272_POSITIVE 284 50 4 86 35 pint:PI1440|3end_conserved_hypothetical_protein_1363009..1363159_POSITIVE