Origin IGS: gcttgcaaagtctgttgtaaagtatttcgaagcggtttacctacgcattgataccattgaacaaggtttgaaagacttatgccatatcgatattgagggggaaggctatcggctggcatatcgt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 acgatatgccagccgatagccttccccctcaatatcgatatggcataagtctttcaaaccttgttcaatggtatcaatgcgtaggtaaaccgcttcgaaatactttacaacagactttgcaagc Mask Tandem Repeat Region ================================================ gcttgcaaagtctgttgtaaagtatttcgaagcggtttacctacgcattgataccattgaacaaggtttgaaagacttatgccatatcgatattgagggggaaggctatcggctggcatatcgt Find is-nt database================================================ Query_seq: PI2161:PI2162|PI2161:PI2162:hypothetical protein:conserved hypothetical protein:->->:2108812..2108935 124 gcttgcaaagtctgttgtaaagtatttcgaagcggtttacctacgcattgataccattgaacaaggtttgaaagacttatgccatatcgatattgagggggaaggctatcggctggcatatcgt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI2161:PI2162|PI2161:PI2162:hypothetical protein:conserved hypothetical protein:->->:2108812..2108935 124 gcttgcaaagtctgttgtaaagtatttcgaagcggtttacctacgcattgataccattgaacaaggtttgaaagacttatgccatatcgatattgagggggaaggctatcggctggcatatcgt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI2161:PI2162|PI2161:PI2162:hypothetical protein:conserved hypothetical protein:->->:2108812..2108935 124 gcttgcaaagtctgttgtaaagtatttcgaagcggtttacctacgcattgataccattgaacaaggtttgaaagacttatgccatatcgatattgagggggaaggctatcggctggcatatcgt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gcttgcaaagtctgttgtaaagtatttcgaagcggtttacctacgcattgataccattgaacaaggtttgaaagacttatgccatatcgatattgagggggaaggctatcggctggcatatcgt Predict ORF larger than 30AA ================================================ Protein_Len: 39 Strand: - Start: 3 End: 119 .. Q L T Q Q L T N R L P K G V C Q Y W Q V L N S L S I G Y R Y Q P P L S D A P M ..... gcttgcaaagtctgttgtaaagtatttcgaagcggtttacctacgcattgataccattgaacaaggtttgaaagacttatgccatatcgatattgagggggaaggctatcggctggcatatcgt 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================================================ gcttgcaaagtctgttgtaaagtatttcgaagcggtttacctacgcattgataccattgaacaaggtttgaaagacttatgccatatcgatattgagggggaaggctatcggctggcatatcgt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI2161:PI2162|PI2161:PI2162:hypothetical protein:conserved hypothetical protein:->->:2108812..2108935 124 gcttgcaaagtctgttgtaaagtatttcgaagcggtttacctacgcattgataccattgaacaaggtttgaaagacttatgccatatcgatattgagggggaaggctatcggctggcatatcgt Intra-Species Hit: Count: 1 Min: 1 Max: 124 Len: 124 Subject: pint_PI2161_PI2162|hypothetical protein:conserved hypothetical protein|POSITIVE:POSITIVE|[2108812,2108935]|124 HSP 1 e-value: 1.0E-64 bit: 246.0 Len: 124 Query Start:1 Query End:124 Subject Strand: POSITIVE Subject Start: 1 Subject End: 124 gcttgcaaagtctgttgtaaagtatttcgaagcggtttacctacgcattgataccattgaacaaggtttgaaagacttatgccatatcgatattgagggggaaggctatcggctggcatatcgt gcttgcaaagtctgttgtaaagtatttcgaagcggtttacctacgcattgataccattgaacaaggtttgaaagacttatgccatatcgatattgagggggaaggctatcggctggcatatcgt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GCUUGCAAAGUCUGUUGUAAAGUAUUUCGAAGCGGUUUACCUACGCAUUGAUACCAUUGAACAAGGUUUGAAAGACUUAUGCCAUAUCGAUAUUGAGGGGGAAGGCUAUCGGCUGGCAUAUCGU .(((.((((.(.((((.....(((..((((.(((.........))).))))))).....)))).).)))).)))...(((((((..((((((..............)))))).))))))).... (-25.04) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ ACGAUAUGCCAGCCGAUAGCCUUCCCCCUCAAUAUCGAUAUGGCAUAAGUCUUUCAAACCUUGUUCAAUGGUAUCAAUGCGUAGGUAAACCGCUUCGAAAUACUUUACAACAGACUUUGCAAGC ....(((((((..(((((..............)))))...)))))))...(((.((((..(((((....(((((.....((.((((.....))))))..)))))....)))))..)))).))). (-24.54) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 409 119 80 78 33 pint:PI1186|5end_conserved_hypothetical_protein_1106480..1106710_POSITIVE 381 120 82 131 75 pint:PI0694|5end_Na+/dicarboxylate_or_sulfate_symporter_629745..629975_POSITIVE 362 47 1 104 54 pint:PI1371|5end_hypothetical_protein_1292359..1292589_POSITIVE 362 37 1 72 34 pint:PI0867|5end_hypothetical_protein_803859..804089_POSITIVE 357 47 3 228 185 pint:PI0695|5end_xanthine/uracil_permease_family_protein_631413..631643_POSITIVE 352 37 1 179 139 pint:PI0887|5end_hypothetical_protein_817536..817766_POSITIVE 347 47 1 187 141 pint:PI0827|5end_hypothetical_protein_763991..764221_POSITIVE 345 37 3 192 157 pint:PI1333|5end_conserved_hypothetical_protein_1250777..1251007_POSITIVE 344 37 3 72 37 pint:PI0119|5end_hypothetical_protein_111506..111736_POSITIVE 344 37 3 230 195 pint:PI0090|5end_amidophosphoribosyltransferase_88379..88609_POSITIVE 338 45 1 197 149 pint:PI0561|5end_hypothetical_protein_508952..509182_POSITIVE 319 118 79 82 38 pint:PI0569|5end_phosphoglycerate_kinase_513297..513527_POSITIVE 318 120 88 84 44 pint:PI0391|5end_conserved_hypothetical_protein_357807..358037_POSITIVE 316 37 3 165 130 pint:PI2046|5end_hypothetical_protein_1999030..1999260_POSITIVE 309 117 90 163 127 pint:PI0375|5end_hypothetical_protein_345634..345864_POSITIVE 305 59 12 191 141 pint:PI1693|5end_possible_RmuC_domain_protein_1608183..1608413_POSITIVE 305 120 74 180 118 pint:PI1068|5end_nucleolar_protein,_Sun_(Fmu)_family_protein;_tRNA/rRNA_cytosine-C5-methylase_984743..984973_POSITIVE 303 45 1 151 103 pint:PI0211|5end_hypothetical_protein_204067..204297_POSITIVE 302 117 88 167 128 pint:PI0257|5end_conjugative_transposon_protein,_TraF_249348..249578_POSITIVE 300 47 1 192 141 pint:PI0653|5end_hypothetical_protein_596046..596276_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 409 119 80 75 30 pint:PI1185|3end_hypothetical_protein_1106557..1106707_POSITIVE 369 37 1 126 88 pint:PI0820|3end_hypothetical_protein_759980..760130_POSITIVE 369 37 1 65 27 pint:PI0819|3end_hypothetical_protein_759919..760069_POSITIVE 362 37 1 126 88 pint:PI1797|3end_hypothetical_protein_1731559..1731709_POSITIVE 362 37 1 126 88 pint:PI1005|3end_hypothetical_protein_926481..926631_POSITIVE 362 37 1 126 88 pint:PI0866|3end_hypothetical_protein_803993..804143_POSITIVE 352 37 1 126 86 pint:PI0885|3end_hypothetical_protein_817563..817713_POSITIVE 348 99 51 140 91 pint:PI0652|3end_conserved_hypothetical_protein_595792..595942_POSITIVE 344 37 3 126 91 pint:PI0118|3end_hypothetical_protein_111640..111790_POSITIVE 344 37 3 126 91 pint:PI0089|3end_hypothetical_protein_88355..88505_POSITIVE 338 45 1 75 27 pint:PI0560|3end_hypothetical_protein_508910..509060_POSITIVE 322 35 3 151 118 pint:PI1308|3end_hypothetical_protein_1223717..1223867_POSITIVE 322 35 3 151 118 pint:PI1204|3end_hypothetical_protein_1124635..1124785_POSITIVE 316 37 3 114 79 pint:PI0815|3end_hypothetical_protein_754677..754827_POSITIVE 316 37 3 114 79 pint:PI0081|3end_hypothetical_protein_80700..80850_POSITIVE 312 35 1 151 115 pint:PI0826|3end_hypothetical_protein_764045..764195_POSITIVE 298 113 75 137 96 pint:PI1128|3end_probable_yrdC_domain_protein,_translation_factor_(SUA5)_1055055..1055205_POSITIVE 298 37 1 126 88 pint:PI1041|3end_hypothetical_protein_960675..960825_POSITIVE 291 117 87 114 79 pint:PI1677|3end_cell_division_protein_FtsH_1593801..1593951_POSITIVE 290 44 1 50 7 pint:PI0055|3end_hypothetical_protein_55044..55194_POSITIVE