Origin IGS: atcttttattaaatataattatattattttaggttgcaaagtaacgaaatatttttggaaaaggaaaggaatttttgaataaaattttaataaacgtgctttattatcagataaattcacgatatttgcaga .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tctgcaaatatcgtgaatttatctgataataaagcacgtttattaaaattttattcaaaaattcctttccttttccaaaaatatttcgttactttgcaacctaaaataatataattatatttaataaaagat Mask Tandem Repeat Region ================================================ atcttttattaaatataattatattattttaggttgcaaagtaacgaaatatttttggaaaaggaaaggaatttttgaataaaattttaataaacgtgctttattatcagataaattcacgatatttgcaga Find is-nt database================================================ Query_seq: PI0956:PI0957|PI0956:PI0957:conserved hypothetical protein:conserved hypothetical protein:->->:888797..888928 132 atcttttattaaatataattatattattttaggttgcaaagtaacgaaatatttttggaaaaggaaaggaatttttgaataaaattttaataaacgtgctttattatcagataaattcacgatatttgcaga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0956:PI0957|PI0956:PI0957:conserved hypothetical protein:conserved hypothetical protein:->->:888797..888928 132 atcttttattaaatataattatattattttaggttgcaaagtaacgaaatatttttggaaaaggaaaggaatttttgaataaaattttaataaacgtgctttattatcagataaattcacgatatttgcaga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0956:PI0957|PI0956:PI0957:conserved hypothetical protein:conserved hypothetical protein:->->:888797..888928 132 atcttttattaaatataattatattattttaggttgcaaagtaacgaaatatttttggaaaaggaaaggaatttttgaataaaattttaataaacgtgctttattatcagataaattcacgatatttgcaga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 atcttttattaaatataattatattattttaggttgcaaagtaacgaaatatttttggaaaaggaaaggaatttttgaataaaattttaataaacgtgctttattatcagataaattcacgatatttgcaga Predict ORF larger than 30AA ================================================ Protein_Len: 34 Strand: - Start: 22 End: 123 ..................... I I K P Q L T V F Y K Q F L F P I K S Y F K L L R A K N D S L N V M ......... atcttttattaaatataattatattattttaggttgcaaagtaacgaaatatttttggaaaaggaaaggaatttttgaataaaattttaataaacgtgctttattatcagataaattcacgatatttgcaga 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================================================ atcttttattaaatataattatattattttaggttgcaaagtaacgaaatatttttggaaaaggaaaggaatttttgaataaaattttaataaacgtgctttattatcagataaattcacgatatttgcaga Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI0956:PI0957|PI0956:PI0957:conserved hypothetical protein:conserved hypothetical protein:->->:888797..888928 132 atcttttattaaatataattatattattttaggttgcaaagtaacgaaatatttttggaaaaggaaaggaatttttgaataaaattttaataaacgtgctttattatcagataaattcacgatatttgcaga Intra-Species Hit: Count: 1 Min: 1 Max: 132 Len: 132 Subject: pint_PI0956_PI0957|conserved hypothetical protein:conserved hypothetical protein|POSITIVE:POSITIVE|[888797,888928]|132 HSP 1 e-value: 3.0E-69 bit: 262.0 Len: 132 Query Start:1 Query End:132 Subject Strand: POSITIVE Subject Start: 1 Subject End: 132 atcttttattaaatataattatattattttaggttgcaaagtaacgaaatatttttggaaaaggaaaggaatttttgaataaaattttaataaacgtgctttattatcagataaattcacgatatttgcaga atcttttattaaatataattatattattttaggttgcaaagtaacgaaatatttttggaaaaggaaaggaatttttgaataaaattttaataaacgtgctttattatcagataaattcacgatatttgcaga Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUCUUUUAUUAAAUAUAAUUAUAUUAUUUUAGGUUGCAAAGUAACGAAAUAUUUUUGGAAAAGGAAAGGAAUUUUUGAAUAAAAUUUUAAUAAACGUGCUUUAUUAUCAGAUAAAUUCACGAUAUUUGCAGA .................................(((((((...........(((((....)))))..((((((((.....))))))))......((((.((((((....))))))..))))...))))))). (-15.20) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UCUGCAAAUAUCGUGAAUUUAUCUGAUAAUAAAGCACGUUUAUUAAAAUUUUAUUCAAAAAUUCCUUUCCUUUUCCAAAAAUAUUUCGUUACUUUGCAACCUAAAAUAAUAUAAUUAUAUUUAAUAAAAGAU ..((((((...((((..(((((......))))).))))........((((((.....)))))).............................)))))).................................. ( -8.80) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 243 59 32 175 147 pint:PI0835|5end_conserved_hypothetical_protein;_possible_protein-export_membrane_protein_771405..771635_POSITIVE 202 80 33 212 157 pint:PI1664|5end_conserved_hypothetical_protein_1577285..1577515_POSITIVE 201 70 32 126 80 pint:PI0176|5end_hypothetical_protein_168230..168460_POSITIVE 200 62 21 230 185 pint:PI1358|5end_phospho-N-acetylmuramoyl-pentapeptide-transferase__1274327..1274557_POSITIVE 199 64 28 166 125 pint:PI0013|5end_auxin-regulated_protein_15506..15736_POSITIVE 197 55 18 178 139 pint:PI0435|5end_30S_ribosomal_protein_S21_406997..407227_POSITIVE 196 80 31 147 93 pint:PI0073|5end_dihydropteroate_synthase_70956..71186_POSITIVE 195 71 31 107 56 pint:PI2039|5end_hypothetical_protein_1992633..1992863_POSITIVE 195 80 33 54 6 pint:PI1663|5end_hypothetical_protein_1577127..1577357_POSITIVE 194 56 27 229 202 pint:PI1467|5end_conserved_hypothetical_protein_1393503..1393733_POSITIVE 188 70 21 90 25 pint:PI0054|5end_hypothetical_protein_54579..54809_POSITIVE 186 65 24 178 140 pint:PI1424|5end_probable_peptidase_family_M48_1343149..1343379_POSITIVE 184 66 21 132 85 pint:PI0507|5end_transcriptional_regulator_466255..466485_POSITIVE 183 69 21 55 6 pint:PI1610|5end_Na+/H+_anti-porter_1536942..1537172_POSITIVE 183 62 31 209 170 pint:PI1376|5end_outer_membrane_protein_1297965..1298195_POSITIVE 182 72 31 85 39 pint:PI0317|5end_possible_kinase;_TPR_repeat?_299179..299409_POSITIVE 180 80 34 171 122 pint:PI1939|5end_hypothetical_protein_1896428..1896658_POSITIVE 179 129 95 149 116 pint:PI2109|5end_surface_antigen_BspA_2060553..2060783_POSITIVE 176 78 31 131 97 pint:PI0584|5end_hypothetical_protein_527352..527582_POSITIVE 174 58 11 122 72 pint:PI2106|5end_hypothetical_protein_2059221..2059451_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 211 70 21 91 37 pint:PI1357|3end_glycosyltransferase_1274259..1274409_POSITIVE 202 80 33 88 33 pint:PI1662|3end_hypothetical_protein_1577241..1577391_POSITIVE 201 70 32 49 3 pint:PI0175|3end_succinyl-CoA_synthetase_beta_subunit_168233..168383_POSITIVE 199 64 28 87 46 pint:PI0012|3end_conserved_hypothetical_protein_15507..15657_POSITIVE 196 80 31 103 49 pint:PI0072|3end_conserved_hypothetical_protein_70992..71142_POSITIVE 185 45 21 57 30 pint:PI1267|3end_probable_integrase_1186475..1186625_POSITIVE 184 69 31 150 98 pint:PI1903|3end_hypothetical_protein_1845569..1845719_POSITIVE 183 69 21 133 84 pint:PI1609|3end_Na+/H+_anti-porter_1537100..1537250_POSITIVE 179 129 95 141 108 pint:PI2108|3end_cell_surface_protein;_possible_cell_surface_antigen_BspA_2060625..2060775_POSITIVE 177 88 52 69 34 pint:PI0745|3end_conserved_hypothetical_protein_675670..675820_POSITIVE 176 69 24 49 5 pint:PI0879|3end_hypothetical_protein_814051..814201_POSITIVE 175 47 32 151 135 pint:PI0834|3end_conserved_hypothetical_protein_771473..771623_POSITIVE 175 48 30 34 16 pint:PI0424|3end_methylated-DNA--[protein]-cysteine_S-methyltransferase_388976..389126_POSITIVE 173 71 43 126 99 pint:PI0727|3end_integrase_660492..660642_POSITIVE 170 56 32 31 7 pint:PI1702|3end_hypothetical_protein_1620867..1621017_POSITIVE 168 130 95 78 48 pint:PI2154|3end_leucyl-tRNA_synthetase_2102829..2102979_POSITIVE 167 107 63 64 24 pint:PI1250|3end_RNA_polymerase_ECF-type_sigma_70_factor_1174781..1174931_POSITIVE 166 71 31 96 53 pint:PI0167|3end_hypothetical_protein_163699..163849_POSITIVE 164 69 30 68 34 pint:PI1917|3end_uracil-DNA_glycosylase_1861596..1861746_POSITIVE 162 65 34 126 98 pint:PI1553|3end_hypothetical_protein_1470170..1470320_POSITIVE