Origin IGS: taattaagaagaaaacagacaagaaaagtgtaaatatttttcacaaacacacctttcacttaacctattaactatcagcacattacaaaacatacgttttcgcattccaaaagagccgcttttacagggtaaaagcggctctt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aagagccgcttttaccctgtaaaagcggctcttttggaatgcgaaaacgtatgttttgtaatgtgctgatagttaataggttaagtgaaaggtgtgtttgtgaaaaatatttacacttttcttgtctgttttcttcttaatta Mask Tandem Repeat Region ================================================ taattaagaagaaaacagacaagaaaagtgtaaatatttttcacaaacacacctttcacttaacctattaactatcagcacattacaaaacatacgttttcgcattccaaaagagccgcttttacagggtaaaagcggctctt Find is-nt database================================================ Query_seq: PI1946:PI1948|PI1946:PI1948:hypothetical protein:hypothetical protein:->->:1903081..1903223 143 taattaagaagaaaacagacaagaaaagtgtaaatatttttcacaaacacacctttcacttaacctattaactatcagcacattacaaaacatacgttttcgcattccaaaagagccgcttttacagggtaaaagcggctctt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1946:PI1948|PI1946:PI1948:hypothetical protein:hypothetical protein:->->:1903081..1903223 143 taattaagaagaaaacagacaagaaaagtgtaaatatttttcacaaacacacctttcacttaacctattaactatcagcacattacaaaacatacgttttcgcattccaaaagagccgcttttacagggtaaaagcggctctt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1946:PI1948|PI1946:PI1948:hypothetical protein:hypothetical protein:->->:1903081..1903223 143 taattaagaagaaaacagacaagaaaagtgtaaatatttttcacaaacacacctttcacttaacctattaactatcagcacattacaaaacatacgttttcgcattccaaaagagccgcttttacagggtaaaagcggctctt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taattaagaagaaaacagacaagaaaagtgtaaatatttttcacaaacacacctttcacttaacctattaactatcagcacattacaaaacatacgttttcgcattccaaaagagccgcttttacagggtaaaagcggctctt Predict ORF larger than 30AA ================================================ Protein_Len: 33 Strand: - Start: 7 End: 105 ...... S S F L C S F H L Y K E C V C R E S L R N V I L V N C F M R K R M ...................................... taattaagaagaaaacagacaagaaaagtgtaaatatttttcacaaacacacctttcacttaacctattaactatcagcacattacaaaacatacgttttcgcattccaaaagagccgcttttacagggtaaaagcggctctt 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================================================ taattaagaagaaaacagacaagaaaagtgtaaatatttttcacaaacacacctttcacttaacctattaactatcagcacattacaaaacatacgttttcgcattccaaaagagccgcttttacagggtaaaagcggctctt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI1946:PI1948|PI1946:PI1948:hypothetical protein:hypothetical protein:->->:1903081..1903223 143 taattaagaagaaaacagacaagaaaagtgtaaatatttttcacaaacacacctttcacttaacctattaactatcagcacattacaaaacatacgttttcgcattccaaaagagccgcttttacagggtaaaagcggctctt Intra-Species Hit: Count: 2 Min: 1 Max: 143 Len: 143 Subject: pint_PI1946_PI1948|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[1903081,1903223]|143 HSP 1 e-value: 8.0E-76 bit: 283.0 Len: 143 Query Start:1 Query End:143 Subject Strand: POSITIVE Subject Start: 1 Subject End: 143 taattaagaagaaaacagacaagaaaagtgtaaatatttttcacaaacacacctttcacttaacctattaactatcagcacattacaaaacatacgttttcgcattccaaaagagccgcttttacagggtaaaagcggctctt taattaagaagaaaacagacaagaaaagtgtaaatatttttcacaaacacacctttcacttaacctattaactatcagcacattacaaaacatacgttttcgcattccaaaagagccgcttttacagggtaaaagcggctctt Subject: pint_PI0560_PI0561|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[508971,509091]|121 HSP 1 e-value: 5.0E-6 bit: 52.0 Len: 114 Query Start:30 Query End:143 Subject Strand: NEGATIVE Subject Start: 1 Subject End: 114 .............................gtaaatatttttcacaaacacacctttcacttaacctattaactatcagcacattacaaaacatacgttttcgcattccaaaagagccgcttttacagggtaaaagcggctctt .............................gtaaatatttttcacaagcaaagctttcacgcaacctcttaattatcaacgctttgcaaaacctattgttttgcattccaaaagcgtaggttttgcacggtaaaagcggctctt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUUAAGAAGAAAACAGACAAGAAAAGUGUAAAUAUUUUUCACAAACACACCUUUCACUUAACCUAUUAACUAUCAGCACAUUACAAAACAUACGUUUUCGCAUUCCAAAAGAGCCGCUUUUACAGGGUAAAAGCGGCUCUU ..........((((((......((((.((((.................)))).))))..((((....))))........................)))))).........(((((((((((((((...))))))))))))))) (-31.43) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAGAGCCGCUUUUACCCUGUAAAAGCGGCUCUUUUGGAAUGCGAAAACGUAUGUUUUGUAAUGUGCUGAUAGUUAAUAGGUUAAGUGAAAGGUGUGUUUGUGAAAAAUAUUUACACUUUUCUUGUCUGUUUUCUUCUUAAUUA (((((((((((((((...)))))))))))))))...............(((((((....))))))).((.((..((((((......((((((((((..(((.....)))..))))))))))...))))))..))))....... (-43.30) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 554 140 96 204 161 pint:PI1870|5end_hypothetical_protein_1815302..1815532_POSITIVE 464 140 108 33 1 pint:PI1869|5end_hypothetical_protein_1815131..1815361_POSITIVE 462 140 95 82 34 pint:PI1760|5end_hypothetical_protein_1684413..1684643_POSITIVE 440 59 11 120 71 pint:PI0653|5end_hypothetical_protein_596046..596276_POSITIVE 437 140 95 104 37 pint:PI1845|5end_hypothetical_protein_1791457..1791687_POSITIVE 432 134 95 49 10 pint:PI1839|5end_hypothetical_protein_1782178..1782408_POSITIVE 402 140 96 116 73 pint:PI1371|5end_hypothetical_protein_1292359..1292589_POSITIVE 387 140 96 181 138 pint:PI1437|5end_hypothetical_protein_1356088..1356318_POSITIVE 387 140 96 54 11 pint:PI1436|5end_hypothetical_protein_1355961..1356191_POSITIVE 387 140 96 209 166 pint:PI0561|5end_hypothetical_protein_508952..509182_POSITIVE 387 140 96 163 120 pint:PI0211|5end_hypothetical_protein_204067..204297_POSITIVE 387 140 96 182 139 pint:PI0196|5end_hypothetical_protein_188435..188665_POSITIVE 387 140 96 54 11 pint:PI0037|5end_hypothetical_protein_39354..39584_POSITIVE 380 120 71 159 112 pint:PI0991|5end_conserved_hypothetical_protein_915309..915539_POSITIVE 370 127 96 45 15 pint:PI0815|5end_hypothetical_protein_754475..754705_POSITIVE 363 120 71 220 173 pint:PI0695|5end_xanthine/uracil_permease_family_protein_631413..631643_POSITIVE 359 137 96 198 158 pint:PI0827|5end_hypothetical_protein_763991..764221_POSITIVE 355 140 93 80 30 pint:PI1528|5end_hypothetical_protein_1449685..1449915_POSITIVE 353 140 96 54 11 pint:PI0926|5end_hypothetical_protein_856824..857054_POSITIVE 351 104 73 198 167 pint:PI1890|5end_cell_division_protein_FtsW_1832886..1833116_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 462 140 95 132 84 pint:PI1761|3end_hypothetical_protein_1684543..1684693_POSITIVE 387 140 96 109 66 pint:PI0905|3end_hypothetical_protein_834697..834847_POSITIVE 387 140 96 87 44 pint:PI0560|3end_hypothetical_protein_508910..509060_POSITIVE 384 137 96 145 105 pint:PI1005|3end_hypothetical_protein_926481..926631_POSITIVE 363 120 73 114 69 pint:PI0815|3end_hypothetical_protein_754677..754827_POSITIVE 339 120 72 114 68 pint:PI0638|3end_hypothetical_protein_582402..582552_POSITIVE 339 120 72 109 63 pint:PI0637|3end_hypothetical_protein_582397..582547_POSITIVE 337 137 96 101 61 pint:PI0567|3end_hypothetical_protein_513055..513205_POSITIVE 335 137 96 145 105 pint:PI1797|3end_hypothetical_protein_1731559..1731709_POSITIVE 335 137 96 145 105 pint:PI0885|3end_hypothetical_protein_817563..817713_POSITIVE 335 137 96 145 105 pint:PI0866|3end_hypothetical_protein_803993..804143_POSITIVE 335 137 96 145 105 pint:PI0820|3end_hypothetical_protein_759980..760130_POSITIVE 335 137 96 84 44 pint:PI0819|3end_hypothetical_protein_759919..760069_POSITIVE 335 137 96 145 105 pint:PI0118|3end_hypothetical_protein_111640..111790_POSITIVE 335 137 96 133 93 pint:PI0095|3end_hypothetical_protein_91850..92000_POSITIVE 335 137 96 145 105 pint:PI0089|3end_hypothetical_protein_88355..88505_POSITIVE 329 118 72 150 107 pint:PI0826|3end_hypothetical_protein_764045..764195_POSITIVE 326 123 86 75 38 pint:PI1861|3end_hypothetical_protein_1806114..1806264_POSITIVE 326 118 72 150 107 pint:PI1308|3end_hypothetical_protein_1223717..1223867_POSITIVE 322 140 96 109 66 pint:PI1521|3end_hypothetical_protein_1441461..1441611_POSITIVE