Origin IGS: tttttgtagaattatctatccgtaaactcactttgatgattcaaagataatataaaaaaatagcaaaaacaaatatgtatcaagaaaattagtgttatttgtttattttaccattatttgttcctaattgtcattttaaaacattacttttgcatctataatatagattgtttcaaaaataacgtttaaaaagaattagagt .........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 actctaattctttttaaacgttatttttgaaacaatctatattatagatgcaaaagtaatgttttaaaatgacaattaggaacaaataatggtaaaataaacaaataacactaattttcttgatacatatttgtttttgctatttttttatattatctttgaatcatcaaagtgagtttacggatagataattctacaaaaa Mask Tandem Repeat Region ================================================ tttttgtagaattatctatccgtaaactcactttgatgattcaaagataatataaaaaaatagcaaaaacaaatatgtatcaagaaaattagtgttatttgtttattttaccattatttgttcctaattgtcattttaaaacattacttttgcatctataatatagattgtttcaaaaataacgtttaaaaagaattagagt Find is-nt database================================================ Query_seq: PI0922:PI0923|PI0922:PI0923:conserved hypothetical protein:6-phosphofructokinase:->->:853254..853455 202 tttttgtagaattatctatccgtaaactcactttgatgattcaaagataatataaaaaaatagcaaaaacaaatatgtatcaagaaaattagtgttatttgtttattttaccattatttgttcctaattgtcattttaaaacattacttttgcatctataatatagattgtttcaaaaataacgtttaaaaagaattagagt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0922:PI0923|PI0922:PI0923:conserved hypothetical protein:6-phosphofructokinase:->->:853254..853455 202 tttttgtagaattatctatccgtaaactcactttgatgattcaaagataatataaaaaaatagcaaaaacaaatatgtatcaagaaaattagtgttatttgtttattttaccattatttgttcctaattgtcattttaaaacattacttttgcatctataatatagattgtttcaaaaataacgtttaaaaagaattagagt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0922:PI0923|PI0922:PI0923:conserved hypothetical protein:6-phosphofructokinase:->->:853254..853455 202 tttttgtagaattatctatccgtaaactcactttgatgattcaaagataatataaaaaaatagcaaaaacaaatatgtatcaagaaaattagtgttatttgtttattttaccattatttgttcctaattgtcattttaaaacattacttttgcatctataatatagattgtttcaaaaataacgtttaaaaagaattagagt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tttttgtagaattatctatccgtaaactcactttgatgattcaaagataatataaaaaaatagcaaaaacaaatatgtatcaagaaaattagtgttatttgtttattttaccattatttgttcctaattgtcattttaaaacattacttttgcatctataatatagattgtttcaaaaataacgtttaaaaagaattagagt Predict ORF larger than 30AA ================================================ Protein_Len: 38 Strand: + Start: 73 End: 186 ........................................................................ M C I K K I S V I C L F Y H Y L F L I V I L K H Y F C I Y N I D C F K N N V ................ tttttgtagaattatctatccgtaaactcactttgatgattcaaagataatataaaaaaatagcaaaaacaaatatgtatcaagaaaattagtgttatttgtttattttaccattatttgttcctaattgtcattttaaaacattacttttgcatctataatatagattgtttcaaaaataacgtttaaaaagaattagagt 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: 133 End: 162 ....................................................................................................................................ATTTTAAAACATTACTTTTGCATCTATAAT........................................ Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ tttttgtagaattatctatccgtaaactcactttgatgattcaaagataatataaaaaaatagcaaaaacaaatatgtatcaagaaaattagtgttatttgtttattttaccattatttgttcctaattgtcattttaaaacattacttttgcatctataatatagattgtttcaaaaataacgtttaaaaagaattagagt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI0922:PI0923|PI0922:PI0923:conserved hypothetical protein:6-phosphofructokinase:->->:853254..853455 202 tttttgtagaattatctatccgtaaactcactttgatgattcaaagataatataaaaaaatagcaaaaacaaatatgtatcaagaaaattagtgttatttgtttattttaccattatttgttcctaattgtcattttaaaacattacttttgcatctataatatagattgtttcaaaaataacgtttaaaaagaattagagt Intra-Species Hit: Count: 1 Min: 1 Max: 202 Len: 202 Subject: pint_PI0922_PI0923|conserved hypothetical protein:6-phosphofructokinase|POSITIVE:POSITIVE|[853254, 853455]|202 HSP 1 e-value: 2.0E-98 bit: 359.0 Len: 202 Query Start:1 Query End:202 Subject Strand: POSITIVE Subject Start: 1 Subject End: 202 tttttgtagaattatctatccgtaaactcactttgatgattcaaagataatatnnnnnnntagcaaaaacaaatatgtatcaagaaaattagtgttatttgtttattttaccattatttgttcctaattgtcattttaaaacattacttttgcatctataatatagattgtttcaaaaataacgtttaaaaagaattagagt tttttgtagaattatctatccgtaaactcactttgatgattcaaagataatataaaaaaatagcaaaaacaaatatgtatcaagaaaattagtgttatttgtttattttaccattatttgttcctaattgtcattttaaaacattacttttgcatctataatatagattgtttcaaaaataacgtttaaaaagaattagagt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUUUGUAGAAUUAUCUAUCCGUAAACUCACUUUGAUGAUUCAAAGAUAAUAUAAAAAAAUAGCAAAAACAAAUAUGUAUCAAGAAAAUUAGUGUUAUUUGUUUAUUUUACCAUUAUUUGUUCCUAAUUGUCAUUUUAAAACAUUACUUUUGCAUCUAUAAUAUAGAUUGUUUCAAAAAUAACGUUUAAAAAGAAUUAGAGU ........((((((((..................))))))))..(((((((.(((((....((((((((((...((...........))...)))).))))))..)))))..)))))))....((((((....((((.((((.(((.(((((.((((((...)))))).....))))).))).)))).)))).))))))... (-24.87) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ ACUCUAAUUCUUUUUAAACGUUAUUUUUGAAACAAUCUAUAUUAUAGAUGCAAAAGUAAUGUUUUAAAAUGACAAUUAGGAACAAAUAAUGGUAAAAUAAACAAAUAACACUAAUUUUCUUGAUACAUAUUUGUUUUUGCUAUUUUUUUAUAUUAUCUUUGAAUCAUCAAAGUGAGUUUACGGAUAGAUAAUUCUACAAAAA ..((((((((((((.((((((((((((((.....((((((...)))))).)))))))))))))).)))).))..)))))).......((((((((((...(((((((....................)))))))))))))))))...((((.((((((.((((((((....)))).)))).))))))))))........... (-36.55) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 234 159 117 144 109 pint:PI1656|5end_hypothetical_protein_1570242..1570472_POSITIVE 215 168 126 123 83 pint:PI0011|5end_conserved_hypothetical_protein_12142..12372_POSITIVE 203 174 137 211 170 pint:PI1912|5end_possible_DNA_repair_protein_1856364..1856594_POSITIVE 200 155 111 109 64 pint:PI0339|5end_hypothetical_protein_315735..315965_POSITIVE 189 49 1 195 141 pint:PI0714|5end_conserved_hypothetical_protein_651345..651575_POSITIVE 188 150 104 86 50 pint:PI0403|5end_probable_integrase_370089..370319_POSITIVE 185 49 3 76 31 pint:PI2059|5end_conserved_hypothetical_protein_2017319..2017549_POSITIVE 183 154 111 200 159 pint:PI0350|5end_conserved_hypothetical_protein_323757..323987_POSITIVE 182 188 144 207 167 pint:PI1712|5end_hypothetical_protein_1627497..1627727_POSITIVE 182 40 2 174 133 pint:PI1612|5end_hypothetical_protein_1539167..1539397_POSITIVE 182 133 91 90 51 pint:PI1220|5end_tRNA_isopentenyltransferase_(tRNA_delta(2)-isopentenylpyrophosphate_transferase)_(IPP_transferase)_1139330..1139560_POSITIVE 179 174 132 108 67 pint:PI0528|5end_hypothetical_protein_482791..483021_POSITIVE 176 49 4 62 4 pint:PI1884|5end_conserved_hypothetical_protein_1826883..1827113_POSITIVE 175 133 91 220 183 pint:PI2043|5end_hypothetical_protein_1996058..1996288_POSITIVE 174 157 111 198 158 pint:PI1005|5end_hypothetical_protein_926201..926431_POSITIVE 174 144 101 185 141 pint:PI0995|5end_hypothetical_protein_920558..920788_POSITIVE 174 144 101 85 41 pint:PI0996|5end_hypothetical_protein_920458..920688_POSITIVE 174 157 114 219 178 pint:PI0450|5end_hypothetical_protein_423661..423891_POSITIVE 172 200 152 204 149 pint:PI1955|5end_N_utilization_substance_protein_A_1911782..1912012_POSITIVE 172 159 138 208 181 pint:PI0424|5end_methylated-DNA--[protein]-cysteine_S-methyltransferase_388429..388659_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 234 159 117 39 4 pint:PI1655|3end_hypothetical_protein_1570217..1570367_POSITIVE 212 159 111 147 98 pint:PI0138|3end_hypothetical_protein_131365..131515_POSITIVE 187 66 23 111 65 pint:PI0641|3end_conserved_hypothetical_protein_584560..584710_POSITIVE 186 126 100 70 45 pint:PI0201|3end_hypothetical_protein_195398..195548_POSITIVE 185 40 4 134 97 pint:PI1024|3end_conserved_hypothetical_protein;_possible_nitroreductase_family_protein_940732..940882_POSITIVE 183 187 145 77 39 pint:PI0524|3end_meso-diaminopimelate_D-dehydrogenase_480849..480999_POSITIVE 182 40 2 116 75 pint:PI1611|3end_aspartate-semialdehyde_dehydrogenase_1539189..1539339_POSITIVE 182 133 91 56 17 pint:PI1219|3end_UDP-N-acetylglucosamine_acyltransferase_1139376..1139526_POSITIVE 174 157 111 134 94 pint:PI1004|3end_conserved_hypothetical_protein_926217..926367_POSITIVE 172 159 138 131 104 pint:PI0423|3end_hypothetical_protein_388432..388582_POSITIVE 170 43 6 62 23 pint:PI1786|3end_hypothetical_protein_1718380..1718530_POSITIVE 170 138 91 64 16 pint:PI0998|3end_possible_flavin_reductase_domain_protein_923336..923486_POSITIVE 170 167 142 41 12 pint:PI0892|3end_acyl-ACP_thioesterase_823939..824089_POSITIVE 170 174 144 121 88 pint:PI0080|3end_hypothetical_protein_80422..80572_POSITIVE 169 54 27 42 14 pint:PI0183|3end_hypothetical_protein_174810..174960_POSITIVE 165 38 1 121 91 pint:PI1744|3end_chromosome_partitioning_protein_1666620..1666770_POSITIVE 165 44 6 99 64 pint:PI0411|3end_conserved_hypothetial_protein;_possible_hydrolase_379828..379978_POSITIVE 164 67 27 86 37 pint:PI0276|3end_anti-restriction_protein_265021..265171_POSITIVE 163 156 131 36 11 pint:PI1150|3end_30S_ribosomal_protein_S6_1076104..1076254_POSITIVE 163 148 102 121 77 pint:PI0957|3end_conserved_hypothetical_protein_889987..890137_POSITIVE