Origin IGS: taggttttacaacacactgataacaaggtagttacacaatagatatgtttgtgaaaaatatttacacttttattatgtatctttcgcctatcgttttacaaaaaacgagcatta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taatgctcgttttttgtaaaacgataggcgaaagatacataataaaagtgtaaatatttttcacaaacatatctattgtgtaactaccttgttatcagtgtgttgtaaaaccta Mask Tandem Repeat Region ================================================ taggttttacaacacactgataacaaggtagttacacaatagatatgtttgtgaaaaatatttacacttttattatgtatctttcgcctatcgttttacaaaaaacgagcatta Find is-nt database================================================ Query_seq: PI0095:PI0096|PI0095:PI0096:hypothetical protein:glycerol-3-phosphate cytidylyltransferase:->->:91911..92024 114 taggttttacaacacactgataacaaggtagttacacaatagatatgtttgtgaaaaatatttacacttttattatgtatctttcgcctatcgttttacaaaaaacgagcatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0095:PI0096|PI0095:PI0096:hypothetical protein:glycerol-3-phosphate cytidylyltransferase:->->:91911..92024 114 taggttttacaacacactgataacaaggtagttacacaatagatatgtttgtgaaaaatatttacacttttattatgtatctttcgcctatcgttttacaaaaaacgagcatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0095:PI0096|PI0095:PI0096:hypothetical protein:glycerol-3-phosphate cytidylyltransferase:->->:91911..92024 114 taggttttacaacacactgataacaaggtagttacacaatagatatgtttgtgaaaaatatttacacttttattatgtatctttcgcctatcgttttacaaaaaacgagcatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taggttttacaacacactgataacaaggtagttacacaatagatatgtttgtgaaaaatatttacacttttattatgtatctttcgcctatcgttttacaaaaaacgagcatta Predict ORF larger than 30AA ================================================ taggttttacaacacactgataacaaggtagttacacaatagatatgtttgtgaaaaatatttacacttttattatgtatctttcgcctatcgttttacaaaaaacgagcatta 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================================================ taggttttacaacacactgataacaaggtagttacacaatagatatgtttgtgaaaaatatttacacttttattatgtatctttcgcctatcgttttacaaaaaacgagcatta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI0095:PI0096|PI0095:PI0096:hypothetical protein:glycerol-3-phosphate cytidylyltransferase:->->:91911..92024 114 taggttttacaacacactgataacaaggtagttacacaatagatatgtttgtgaaaaatatttacacttttattatgtatctttcgcctatcgttttacaaaaaacgagcatta Intra-Species Hit: Count: 1 Min: 1 Max: 114 Len: 114 Subject: pint_PI0095_PI0096|hypothetical protein:glycerol-3-phosphate cytidylyltransferase|POSITIVE:POSITIVE|[91911,92024]|114 HSP 1 e-value: 1.0E-58 bit: 226.0 Len: 114 Query Start:1 Query End:114 Subject Strand: POSITIVE Subject Start: 1 Subject End: 114 taggttttacaacacactgataacaaggtagttacacaatagatatgtttgtgaaaaatatttacacttttattatgtatctttcgcctatcgttttacaaaaaacgagcatta taggttttacaacacactgataacaaggtagttacacaatagatatgtttgtgaaaaatatttacacttttattatgtatctttcgcctatcgttttacaaaaaacgagcatta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGGUUUUACAACACACUGAUAACAAGGUAGUUACACAAUAGAUAUGUUUGUGAAAAAUAUUUACACUUUUAUUAUGUAUCUUUCGCCUAUCGUUUUACAAAAAACGAGCAUUA .........................((((((.((((.((((((..(((.(((.....)))...)))..)))))).)))).))...)))).(((((((....)))))))...... (-17.70) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUGCUCGUUUUUUGUAAAACGAUAGGCGAAAGAUACAUAAUAAAAGUGUAAAUAUUUUUCACAAACAUAUCUAUUGUGUAACUACCUUGUUAUCAGUGUGUUGUAAAACCUA ......(((((((....))))))).(((.(((((((((((.......)))))....))))))...(((((((....((.(((((......))))))))))))))......))). (-18.90) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 555 67 26 130 89 pint:PI0200|5end_hypothetical_protein_191545..191775_POSITIVE 541 67 26 185 144 pint:PI0841|5end_hypothetical_protein_775406..775636_POSITIVE 511 70 21 134 84 pint:PI1733|5end_hypothetical_protein_1652160..1652390_POSITIVE 501 67 25 89 48 pint:PI0928|5end_hypothetical_protein_859851..860081_POSITIVE 479 68 21 131 84 pint:PI2131|5end_hypothetical_protein_2080678..2080908_POSITIVE 466 67 23 67 20 pint:PI0689|5end_hypothetical_protein_625624..625854_POSITIVE 444 69 23 121 72 pint:PI1057|5end_hypothetical_protein_977286..977516_POSITIVE 428 42 1 141 100 pint:PI1679|5end_hypothetical_protein_1594744..1594974_POSITIVE 428 69 25 132 88 pint:PI0182|5end_hypothetical_protein_174093..174323_POSITIVE 427 67 24 119 76 pint:PI0099|5end_hypothetical_protein_95530..95760_POSITIVE 384 66 26 157 117 pint:PI1694|5end_hypothetical_protein_1609717..1609947_POSITIVE 383 70 26 133 89 pint:PI0004|5end_hypothetical_protein_6199..6429_POSITIVE 380 70 26 150 105 pint:PI1866|5end_hypothetical_protein_1811693..1811923_POSITIVE 377 70 26 149 105 pint:PI1129|5end_hypothetical_protein_1055377..1055607_POSITIVE 362 50 1 190 141 pint:PI0157|5end_hypothetical_protein_151185..151415_POSITIVE 362 44 1 184 141 pint:PI0055|5end_hypothetical_protein_54815..55045_POSITIVE 362 44 1 96 53 pint:PI0053|5end_hypothetical_protein_54727..54957_POSITIVE 346 73 31 125 83 pint:PI1869|5end_hypothetical_protein_1815131..1815361_POSITIVE 342 67 26 130 89 pint:PI0061|5end_hypothetical_protein_60500..60730_POSITIVE 337 70 25 171 124 pint:PI2128|5end_hypothetical_protein_2076512..2076742_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 479 68 21 84 37 pint:PI2130|3end_DNA_polymerase_I_2080711..2080861_POSITIVE 466 67 23 113 66 pint:PI0688|3end_hypothetical_protein_625750..625900_POSITIVE 403 67 21 93 47 pint:PI1813|3end_hypothetical_protein_1753086..1753236_POSITIVE 398 67 26 55 14 pint:PI2172|3end_hypothetical_protein_2113991..2114141_POSITIVE 372 67 27 41 1 pint:PI0098|3end_conserved_hypothetical_protein_(possible_glycosyl/glycerophosphate_transferase)_95532..95682_POSITIVE 364 90 42 75 23 pint:PI1485|3end_hypothetical_protein_1405339..1405489_POSITIVE 362 44 1 118 75 pint:PI0054|3end_hypothetical_protein_54829..54979_POSITIVE 342 60 11 55 6 pint:PI0051|3end_hypothetical_protein_53388..53538_POSITIVE 333 60 11 100 51 pint:PI0669|3end_hypothetical_protein_611147..611297_POSITIVE 327 90 41 51 2 pint:PI2173|3end_hypothetical_protein_2113964..2114114_POSITIVE 306 90 42 61 14 pint:PI0770|3end_hypothetical_protein_706354..706504_POSITIVE 294 67 21 53 7 pint:PI0412|3end_primosomal_protein_N',_replication_factor_Y_382152..382302_POSITIVE 284 67 30 71 34 pint:PI1600|3end_conserved_hypothetical_protein_1530275..1530425_POSITIVE 282 88 46 64 22 pint:PI1424|3end_probable_peptidase_family_M48_1344044..1344194_POSITIVE 280 70 21 89 40 pint:PI2143|3end_DNA_mismatch_repair_protein_2091974..2092124_POSITIVE 276 68 23 63 18 pint:PI1117|3end_glycosyl_transferase,_family_2_1042279..1042429_POSITIVE 274 84 41 109 67 pint:PI1391|3end_hypothetical_protein_1311694..1311844_POSITIVE 272 71 46 67 42 pint:PI1946|3end_hypothetical_protein_1903020..1903170_POSITIVE 271 70 21 77 27 pint:PI1566|3end_predicted_TPR-repeat-containing_protein_1489224..1489374_POSITIVE 271 84 46 129 92 pint:PI0186|3end_hypothetical_protein_178003..178153_POSITIVE