Origin IGS: taggttttgtaaagtgttggtaataagaaggttatgcgatagatatatttgagaagaatctttacagttttattgcctctttttcgtctataaaacaagtttttttcactgaatttttactattctcacagtgtgcctttacaatttcgtaaaagcgataataatgtataaaaagtggcaataaaattcttgtttataaattttatttgtatctttgaccgatagtgtaggttgtttaaacctatcacacaaaagcatataagtatttaactgctaagtatagacataaaaacgagagaattatgggataccttaaatttgaaaaagctctg .........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.........1.........2.........3.........4.........5.........6.........7.........8.........9 cagagctttttcaaatttaaggtatcccataattctctcgtttttatgtctatacttagcagttaaatacttatatgcttttgtgtgataggtttaaacaacctacactatcggtcaaagatacaaataaaatttataaacaagaattttattgccactttttatacattattatcgcttttacgaaattgtaaaggcacactgtgagaatagtaaaaattcagtgaaaaaaacttgttttatagacgaaaaagaggcaataaaactgtaaagattcttctcaaatatatctatcgcataaccttcttattaccaacactttacaaaaccta Mask Tandem Repeat Region ================================================ taggttttgtaaagtgttggtaataagaaggttatgcgatagatatatttgagaagaatctttacagttttattgcctctttttcgtctataaaacaagtttttttcactgaatttttactattctcacagtgtgcctttacaatttcgtaaaagcgataataatgtataaaaagtggcaataaaattcttgtttataaattttatttgtatctttgaccgatagtgtaggttgtttaaacctatcacacaaaagcatataagtatttaactgctaagtatagacataaaaacgagagaattatgggataccttaaatttgaaaaagctctg Find is-nt database================================================ Query_seq: PI0815:PI0816|PI0815:PI0816:hypothetical protein:glycogen debranching enzyme:->->:754738..755069 332 taggttttgtaaagtgttggtaataagaaggttatgcgatagatatatttgagaagaatctttacagttttattgcctctttttcgtctataaaacaagtttttttcactgaatttttactattctcacagtgtgcctttacaatttcgtaaaagcgataataatgtataaaaagtggcaataaaattcttgtttataaattttatttgtatctttgaccgatagtgtaggttgtttaaacctatcacacaaaagcatataagtatttaactgctaagtatagacataaaaacgagagaattatgggataccttaaatttgaaaaagctctg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0815:PI0816|PI0815:PI0816:hypothetical protein:glycogen debranching enzyme:->->:754738..755069 332 taggttttgtaaagtgttggtaataagaaggttatgcgatagatatatttgagaagaatctttacagttttattgcctctttttcgtctataaaacaagtttttttcactgaatttttactattctcacagtgtgcctttacaatttcgtaaaagcgataataatgtataaaaagtggcaataaaattcttgtttataaattttatttgtatctttgaccgatagtgtaggttgtttaaacctatcacacaaaagcatataagtatttaactgctaagtatagacataaaaacgagagaattatgggataccttaaatttgaaaaagctctg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0815:PI0816|PI0815:PI0816:hypothetical protein:glycogen debranching enzyme:->->:754738..755069 332 taggttttgtaaagtgttggtaataagaaggttatgcgatagatatatttgagaagaatctttacagttttattgcctctttttcgtctataaaacaagtttttttcactgaatttttactattctcacagtgtgcctttacaatttcgtaaaagcgataataatgtataaaaagtggcaataaaattcttgtttataaattttatttgtatctttgaccgatagtgtaggttgtttaaacctatcacacaaaagcatataagtatttaactgctaagtatagacataaaaacgagagaattatgggataccttaaatttgaaaaagctctg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taggttttgtaaagtgttggtaataagaaggttatgcgatagatatatttgagaagaatctttacagttttattgcctctttttcgtctataaaacaagtttttttcactgaatttttactattctcacagtgtgcctttacaatttcgtaaaagcgataataatgtataaaaagtggcaataaaattcttgtttataaattttatttgtatctttgaccgatagtgtaggttgtttaaacctatcacacaaaagcatataagtatttaactgctaagtatagacataaaaacgagagaattatgggataccttaaatttgaaaaagctctg Predict ORF larger than 30AA ================================================ Protein_Len: 37 Strand: + Start: 39 End: 149 ...................................... M D I F E K N L Y S F I A S F S S I K Q V F F T E F L L F S Q C A F T I S ....................................................................................................................................................................................... Protein_Len: 39 Strand: - Start: 142 End: 258 ............................................................................................................................................. L K T F A I I I Y L F H C Y F E Q K Y I K N T D K V S L T P Q K F R D C L L M .......................................................................... Protein_Len: 46 Strand: - Start: 129 End: 266 ................................................................................................................................ L T G K C N R L L S L L T Y F T A I F N K N I F K I Q I K S R Y H L N N L G I V C F C I L M .................................................................. Protein_Len: 41 Strand: - Start: 65 End: 187 ................................................................ L K I A E K E D I F C T K K V S N K S N E C H A K V I E Y F R Y Y H I F L P L L M ................................................................................................................................................. Protein_Len: 32 Strand: - Start: 3 End: 98 .. T K Y L T P L L F T I R Y I Y K L L I K V T K N G R K R R Y F M .......................................................................................................................................................................................................................................... taggttttgtaaagtgttggtaataagaaggttatgcgatagatatatttgagaagaatctttacagttttattgcctctttttcgtctataaaacaagtttttttcactgaatttttactattctcacagtgtgcctttacaatttcgtaaaagcgataataatgtataaaaagtggcaataaaattcttgtttataaattttatttgtatctttgaccgatagtgtaggttgtttaaacctatcacacaaaagcatataagtatttaactgctaagtatagacataaaaacgagagaattatgggataccttaaatttgaaaaagctctg 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================================================ taggttttgtaaagtgttggtaataagaaggttatgcgatagatatatttgagaagaatctttacagttttattgcctctttttcgtctataaaacaagtttttttcactgaatttttactattctcacagtgtgcctttacaatttcgtaaaagcgataataatgtataaaaagtggcaataaaattcttgtttataaattttatttgtatctttgaccgatagtgtaggttgtttaaacctatcacacaaaagcatataagtatttaactgctaagtatagacataaaaacgagagaattatgggataccttaaatttgaaaaagctctg Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI0815:PI0816|PI0815:PI0816:hypothetical protein:glycogen debranching enzyme:->->:754738..755069 332 taggttttgtaaagtgttggtaataagaaggttatgcgatagatatatttgagaagaatctttacagttttattgcctctttttcgtctataaaacaagtttttttcactgaatttttactattctcacagtgtgcctttacaatttcgtaaaagcgataataatgtataaaaagtggcaataaaattcttgtttataaattttatttgtatctttgaccgatagtgtaggttgtttaaacctatcacacaaaagcatataagtatttaactgctaagtatagacataaaaacgagagaattatgggataccttaaatttgaaaaagctctg Intra-Species Hit: Count: 1 Min: 1 Max: 332 Len: 332 Subject: pint_PI0815_PI0816|hypothetical protein:glycogen debranching enzyme|POSITIVE:POSITIVE|[754738,755069]|332 HSP 1 e-value: 1.0E-175 bit: 617.0 Len: 332 Query Start:1 Query End:332 Subject Strand: POSITIVE Subject Start: 1 Subject End: 332 taggttttgtaaagtgttggtaataagaaggttatgcgatagatatatttgagaagaatctttacagttttattgcctctttttcgtctataaaacaagnnnnnnncactgaatttttactattctcacagtgtgcctttacaatttcgtaaaagcgataataatgtataaaaagtggcaataaaattcttgtttataaattttatttgtatctttgaccgatagtgtaggttgtttaaacctatcacacaaaagcatataagtatttaactgctaagtatagacataaaaacgagagaattatgggataccttaaatttgaaaaagctctg taggttttgtaaagtgttggtaataagaaggttatgcgatagatatatttgagaagaatctttacagttttattgcctctttttcgtctataaaacaagtttttttcactgaatttttactattctcacagtgtgcctttacaatttcgtaaaagcgataataatgtataaaaagtggcaataaaattcttgtttataaattttatttgtatctttgaccgatagtgtaggttgtttaaacctatcacacaaaagcatataagtatttaactgctaagtatagacataaaaacgagagaattatgggataccttaaatttgaaaaagctctg Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGGUUUUGUAAAGUGUUGGUAAUAAGAAGGUUAUGCGAUAGAUAUAUUUGAGAAGAAUCUUUACAGUUUUAUUGCCUCUUUUUCGUCUAUAAAACAAGUUUUUUUCACUGAAUUUUUACUAUUCUCACAGUGUGCCUUUACAAUUUCGUAAAAGCGAUAAUAAUGUAUAAAAAGUGGCAAUAAAAUUCUUGUUUAUAAAUUUUAUUUGUAUCUUUGACCGAUAGUGUAGGUUGUUUAAACCUAUCACACAAAAGCAUAUAAGUAUUUAACUGCUAAGUAUAGACAUAAAAACGAGAGAAUUAUGGGAUACCUUAAAUUUGAAAAAGCUCUG ((((((((...((((...((((..........(((((...(((((((..(((((.........((((((((((((((.((((((......................(((((.................))))).((.(((((......))))).)).............)))))).)))))))))))...))).......)))))..)))))))..........(((((((((.....)))))).)))......)))))...(((((((.....)))))))...(((((...(....)..)))))...))))....))))...))))).))) (-64.42) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CAGAGCUUUUUCAAAUUUAAGGUAUCCCAUAAUUCUCUCGUUUUUAUGUCUAUACUUAGCAGUUAAAUACUUAUAUGCUUUUGUGUGAUAGGUUUAAACAACCUACACUAUCGGUCAAAGAUACAAAUAAAAUUUAUAAACAAGAAUUUUAUUGCCACUUUUUAUACAUUAUUAUCGCUUUUACGAAAUUGUAAAGGCACACUGUGAGAAUAGUAAAAAUUCAGUGAAAAAAACUUGUUUUAUAGACGAAAAAGAGGCAAUAAAACUGUAAAGAUUCUUCUCAAAUAUAUCUAUCGCAUAACCUUCUUAUUACCAACACUUUACAAAACCUA .(((((.............((((((..(((((...........)))))...))))))...(((.....))).....)))))((((((((((((.((.......((((.((((.......)))).......................((((((((((.((((((.............(((((((((....)))))))))...((((((((..(((..................)))..))))))))...)))))).)))))))))).)))).(((....)))....)).))))))))))))................................ (-55.67) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 431 45 1 163 119 pint:PI0841|5end_hypothetical_protein_775406..775636_POSITIVE 422 46 1 46 1 pint:PI0689|5end_hypothetical_protein_625624..625854_POSITIVE 407 50 1 102 53 pint:PI0104|5end_hypothetical_protein_99105..99335_POSITIVE 390 46 1 139 92 pint:PI2002|5end_hypothetical_protein_1960662..1960892_POSITIVE 389 109 61 52 8 pint:PI1051|5end_hypothetical_protein_970053..970283_POSITIVE 385 44 1 107 64 pint:PI2131|5end_hypothetical_protein_2080678..2080908_POSITIVE 382 46 1 98 53 pint:PI0995|5end_hypothetical_protein_920558..920788_POSITIVE 379 46 1 137 92 pint:PI2153|5end_hypothetical_protein_2099392..2099622_POSITIVE 377 42 1 133 92 pint:PI1694|5end_hypothetical_protein_1609717..1609947_POSITIVE 376 42 1 160 119 pint:PI0851|5end_hypothetical_protein_784310..784540_POSITIVE 371 44 1 117 75 pint:PI1195|5end_hypothetical_protein_1113171..1113401_POSITIVE 370 45 1 108 64 pint:PI0200|5end_hypothetical_protein_191545..191775_POSITIVE 358 42 1 94 53 pint:PI1057|5end_hypothetical_protein_977286..977516_POSITIVE 353 44 1 94 53 pint:PI1339|5end_hypothetical_protein_1256671..1256901_POSITIVE 351 44 1 184 141 pint:PI0055|5end_hypothetical_protein_54815..55045_POSITIVE 351 44 1 96 53 pint:PI0053|5end_hypothetical_protein_54727..54957_POSITIVE 341 42 2 105 63 pint:PI0182|5end_hypothetical_protein_174093..174323_POSITIVE 336 49 1 126 80 pint:PI2144|5end_hypothetical_protein_2091954..2092184_POSITIVE 335 79 31 157 110 pint:PI1129|5end_hypothetical_protein_1055377..1055607_POSITIVE 331 97 55 215 173 pint:PI1604|5end_hypothetical_protein_1534017..1534247_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 422 46 1 92 47 pint:PI0688|3end_hypothetical_protein_625750..625900_POSITIVE 402 100 51 141 95 pint:PI1051|3end_hypothetical_protein_970228..970378_POSITIVE 386 100 53 71 25 pint:PI0770|3end_hypothetical_protein_706354..706504_POSITIVE 385 44 1 60 17 pint:PI2130|3end_DNA_polymerase_I_2080711..2080861_POSITIVE 383 42 1 68 27 pint:PI1813|3end_hypothetical_protein_1753086..1753236_POSITIVE 382 46 1 120 75 pint:PI0996|3end_hypothetical_protein_920660..920810_POSITIVE 351 44 1 118 75 pint:PI0054|3end_hypothetical_protein_54829..54979_POSITIVE 336 49 1 66 20 pint:PI2143|3end_DNA_mismatch_repair_protein_2091974..2092124_POSITIVE 331 97 55 123 81 pint:PI1603|3end_hypothetical_protein_1534005..1534155_POSITIVE 305 42 1 46 5 pint:PI1600|3end_conserved_hypothetical_protein_1530275..1530425_POSITIVE 305 45 1 51 7 pint:PI1566|3end_predicted_TPR-repeat-containing_protein_1489224..1489374_POSITIVE 302 44 4 41 1 pint:PI1441|3end_hypothetical_protein_1363673..1363823_POSITIVE 291 46 1 72 27 pint:PI1391|3end_hypothetical_protein_1311694..1311844_POSITIVE 288 90 41 78 29 pint:PI2172|3end_hypothetical_protein_2113991..2114141_POSITIVE 288 90 41 51 2 pint:PI2173|3end_hypothetical_protein_2113964..2114114_POSITIVE 280 59 16 44 1 pint:PI1485|3end_hypothetical_protein_1405339..1405489_POSITIVE 273 256 213 136 97 pint:PI1666|3end_conserved_hypothetical_protein_1579418..1579568_POSITIVE 268 237 212 60 32 pint:PI1628|3end_hypothetical_protein_1551782..1551932_POSITIVE 265 178 132 105 57 pint:PI1238|3end_single-strand_DNA-specific_exonuclease_1163438..1163588_POSITIVE 265 42 1 82 41 pint:PI0669|3end_hypothetical_protein_611147..611297_POSITIVE