Origin IGS: cagaagtgctttttttgccataataattttattcctttaatacctattttactgatttgcaaaggtaagaaaaaacttacaaagcacaaagaaatatcgttattctactatttattttcta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tagaaaataaatagtagaataacgatatttctttgtgctttgtaagttttttcttacctttgcaaatcagtaaaataggtattaaaggaataaaattattatggcaaaaaaagcacttctg Mask Tandem Repeat Region ================================================ cagaagtgctttttttgccataataattttattcctttaatacctattttactgatttgcaaaggtaagaaaaaacttacaaagcacaaagaaatatcgttattctactatttattttcta Find is-nt database================================================ Query_seq: PI1919:PI1921|PI1919:PI1921:2,3-bisphosphoglycerate-independent phosphoglycerate mutase:conserved hypothetical protein:->->:1863936..1864056 121 cagaagtgctttttttgccataataattttattcctttaatacctattttactgatttgcaaaggtaagaaaaaacttacaaagcacaaagaaatatcgttattctactatttattttcta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1919:PI1921|PI1919:PI1921:2,3-bisphosphoglycerate-independent phosphoglycerate mutase:conserved hypothetical protein:->->:1863936..1864056 121 cagaagtgctttttttgccataataattttattcctttaatacctattttactgatttgcaaaggtaagaaaaaacttacaaagcacaaagaaatatcgttattctactatttattttcta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1919:PI1921|PI1919:PI1921:2,3-bisphosphoglycerate-independent phosphoglycerate mutase:conserved hypothetical protein:->->:1863936..1864056 121 cagaagtgctttttttgccataataattttattcctttaatacctattttactgatttgcaaaggtaagaaaaaacttacaaagcacaaagaaatatcgttattctactatttattttcta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 cagaagtgctttttttgccataataattttattcctttaatacctattttactgatttgcaaaggtaagaaaaaacttacaaagcacaaagaaatatcgttattctactatttattttcta Predict ORF larger than 30AA ================================================ Protein_Len: 30 Strand: + Start: 31 End: 120 .............................. M P L I P I L L I C K G K K K L T K H K E I S L F Y Y L F S . Protein_Len: 31 Strand: - Start: 3 End: 95 .. F H K K Q W L L K I G K I G I K S I Q L P L F F S V F C L S M .......................... cagaagtgctttttttgccataataattttattcctttaatacctattttactgatttgcaaaggtaagaaaaaacttacaaagcacaaagaaatatcgttattctactatttattttcta 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================================================ cagaagtgctttttttgccataataattttattcctttaatacctattttactgatttgcaaaggtaagaaaaaacttacaaagcacaaagaaatatcgttattctactatttattttcta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI1919:PI1921|PI1919:PI1921:2,3-bisphosphoglycerate-independent phosphoglycerate mutase:conserved hypothetical protein:->->:1863936..1864056 121 cagaagtgctttttttgccataataattttattcctttaatacctattttactgatttgcaaaggtaagaaaaaacttacaaagcacaaagaaatatcgttattctactatttattttcta Intra-Species Hit: Count: 1 Min: 17 Max: 121 Len: 105 Subject: pint_PI1919_PI1921|2,3-bisphosphoglycerate-independent phosphoglycerate mutase:conserved hypothetical protein|POSITIVE:POSITIVE|[1863936,1864056]|121 HSP 1 e-value: 3.0E-53 bit: 208.0 Len: 105 Query Start:17 Query End:121 Subject Strand: POSITIVE Subject Start: 17 Subject End: 121 ................gccataataattttattcctttaatacctattttactgatttgcaaaggtaagaaaaaacttacaaagcacaaagaaatatcgttattctactatttattttcta ................gccataataattttattcctttaatacctattttactgatttgcaaaggtaagaaaaaacttacaaagcacaaagaaatatcgttattctactatttattttcta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GCCAUAAUAAUUUUAUUCCUUUAAUACCUAUUUUACUGAUUUGCAAAGGUAAGAAAAAACUUACAAAGCACAAAGAAAUAUCGUUAUUCUACUAUUUAUUUUCUA .....((((((..((((.((((.......(((.....))).(((....(((((......)))))...))).)))).))))..))))))................. ( -9.00) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGAAAAUAAAUAGUAGAAUAACGAUAUUUCUUUGUGCUUUGUAAGUUUUUUCUUACCUUUGCAAAUCAGUAAAAUAGGUAUUAAAGGAAUAAAAUUAUUAUGGC .............((..(((((...(((((((((((((((.(((((......))))).(((((......)))))..))))).))))))))))...)))))...)) (-17.10) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 215 77 37 128 92 pint:PI0423|5end_hypothetical_protein_388101..388331_POSITIVE 211 70 22 195 151 pint:PI1496|5end_nucleoside_phosphorylase_1417116..1417346_POSITIVE 207 78 31 175 122 pint:PI0663|5end_possible_transcriptional_regulator_605999..606229_POSITIVE 201 68 36 61 30 pint:PI2025|5end_conserved_hypothetical_protein_1979028..1979258_POSITIVE 194 57 37 102 83 pint:PI0674|5end_conserved_hypothetical_protein_613711..613941_POSITIVE 194 57 37 38 19 pint:PI0675|5end_hypothetical_protein_613647..613877_POSITIVE 192 80 42 150 112 pint:PI2047|5end_UDP-N-acetylmuramoylalanyl-D-glutamyl-2,6-diamino_pimelate--D-alanyl-D-alanyl_ligase_1999328..1999558_POSITIVE 189 45 1 90 42 pint:PI1701|5end_sensor_histidine_kinase_1619312..1619542_POSITIVE 189 60 13 170 115 pint:PI0660|5end_conserved_hypothetical_protein_603438..603668_POSITIVE 187 69 38 170 142 pint:PI0185|5end_conserved_hypothetical_protein_176992..177222_POSITIVE 186 51 13 65 35 pint:PI1390|5end_hypothetical_protein_1311154..1311384_POSITIVE 184 98 52 105 57 pint:PI1693|5end_possible_RmuC_domain_protein_1608183..1608413_POSITIVE 182 93 67 199 173 pint:PI1723|5end_conserved_hypothetical_protein_1641649..1641879_POSITIVE 182 70 25 154 119 pint:PI1379|5end_hypothetical_protein_1301817..1302047_POSITIVE 182 50 16 212 173 pint:PI1245|5end_hypothetical_protein_1171098..1171328_POSITIVE 182 90 41 71 23 pint:PI0815|5end_hypothetical_protein_754475..754705_POSITIVE 182 50 9 215 169 pint:PI0146|5end_transcription_elongation_factor_140338..140568_POSITIVE 179 70 27 182 140 pint:PI1314|5end_hypothetical_protein_1231188..1231418_POSITIVE 178 86 42 72 32 pint:PI0382|5end_conserved_hypothetical_protein_351510..351740_POSITIVE 178 76 41 209 174 pint:PI0029|5end_glutamine_amidotransferase_(GMP_synthase_(glutamine-hydrolyzing))_32593..32823_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 214 78 35 110 59 pint:PI1896|3end_hypothetical_protein_1841188..1841338_POSITIVE 214 71 42 147 118 pint:PI0299|3end_hypothetical_protein_285086..285236_POSITIVE 201 77 36 91 55 pint:PI0576|3end_helicase,_UvrD/Rep_521724..521874_POSITIVE 193 86 60 118 94 pint:PI0365|3end_hypothetical_protein_336118..336268_POSITIVE 184 98 52 90 42 pint:PI1692|3end_alanine_racemase_1608248..1608398_POSITIVE 180 72 35 151 106 pint:PI1897|3end_conserved_hypothetical_protein_1841235..1841385_POSITIVE 177 72 38 148 112 pint:PI1066|3end_dihydrofolate_reductase_983932..984082_POSITIVE 177 55 19 46 15 pint:PI0867|3end_hypothetical_protein_804202..804352_POSITIVE 176 85 44 130 89 pint:PI0211|3end_hypothetical_protein_204278..204428_POSITIVE 173 80 32 146 101 pint:PI0984|3end_hypothetical_protein_910144..910294_POSITIVE 170 53 27 110 82 pint:PI1092|3end_conserved_hypothetical_protein_1018611..1018761_POSITIVE 170 84 43 72 22 pint:PI0659|3end_hypothetical_protein_603396..603546_POSITIVE 170 97 59 91 45 pint:PI0052|3end_hypothetical_protein_52715..52865_POSITIVE 170 97 59 47 1 pint:PI0050|3end_conserved_hypothetical_protein_52671..52821_POSITIVE 168 54 11 130 93 pint:PI1742|3end_SpoOJ_regulator_protein_1665670..1665820_POSITIVE 165 91 66 47 23 pint:PI1365|3end_conserved_hypothetical_protein;_probable_transmembrane_protein_1285675..1285825_POSITIVE 164 51 16 40 6 pint:PI1514|3end_tRNA_nucleotidyltransferase/poly(A)_polymerase_1434072..1434222_POSITIVE 164 68 41 48 21 pint:PI1446|3end_conserved_hypothetical_protein_1369832..1369982_POSITIVE 162 69 48 85 65 pint:PI1852|3end_conserved_hypothetical_protein_1799321..1799471_POSITIVE 161 80 34 116 76 pint:PI0295|3end_lysine_decarboxylase_277498..277648_POSITIVE