Origin IGS: taggttttgtaatacactggtatataatgagttacgagacagatgctctcttgaaaaataattacagatttattgctttcttttcgcctatacacaaagaaatattgctgtattttacatcttagcagacagcaattatctgttgtttctttta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taaaagaaacaacagataattgctgtctgctaagatgtaaaatacagcaatatttctttgtgtataggcgaaaagaaagcaataaatctgtaattatttttcaagagagcatctgtctcgtaactcattatataccagtgtattacaaaaccta Mask Tandem Repeat Region ================================================ taggttttgtaatacactggtatataatgagttacgagacagatgctctcttgaaaaataattacagatttattgctttcttttcgcctatacacaaagaaatattgctgtattttacatcttagcagacagcaattatctgttgtttctttta Find is-nt database================================================ Query_seq: PI0081:PI0082|PI0081:PI0082:hypothetical protein:conserved hypothetical protein (possible phosphoglycerol transferase):->->:80761..80914 154 taggttttgtaatacactggtatataatgagttacgagacagatgctctcttgaaaaataattacagatttattgctttcttttcgcctatacacaaagaaatattgctgtattttacatcttagcagacagcaattatctgttgtttctttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0081:PI0082|PI0081:PI0082:hypothetical protein:conserved hypothetical protein (possible phosphoglycerol transferase):->->:80761..80914 154 taggttttgtaatacactggtatataatgagttacgagacagatgctctcttgaaaaataattacagatttattgctttcttttcgcctatacacaaagaaatattgctgtattttacatcttagcagacagcaattatctgttgtttctttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0081:PI0082|PI0081:PI0082:hypothetical protein:conserved hypothetical protein (possible phosphoglycerol transferase):->->:80761..80914 154 taggttttgtaatacactggtatataatgagttacgagacagatgctctcttgaaaaataattacagatttattgctttcttttcgcctatacacaaagaaatattgctgtattttacatcttagcagacagcaattatctgttgtttctttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taggttttgtaatacactggtatataatgagttacgagacagatgctctcttgaaaaataattacagatttattgctttcttttcgcctatacacaaagaaatattgctgtattttacatcttagcagacagcaattatctgttgtttctttta Predict ORF larger than 30AA ================================================ Protein_Len: 37 Strand: + Start: 12 End: 122 ........... M H W Y I M S Y E T D A L L K N N Y R F I A F F S P I H K E I L L Y F T S ................................ Protein_Len: 32 Strand: + Start: 58 End: 153 ......................................................... M I T D L L L S F R L Y T K K Y C C I L H L S R Q Q L S V V S F . Protein_Len: 42 Strand: - Start: 3 End: 128 .. T K Y Y V P I Y H T V L C I S E Q F I I V S K N S E K R R Y V F F Y Q Q I K C R L M .......................... taggttttgtaatacactggtatataatgagttacgagacagatgctctcttgaaaaataattacagatttattgctttcttttcgcctatacacaaagaaatattgctgtattttacatcttagcagacagcaattatctgttgtttctttta 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================================================ taggttttgtaatacactggtatataatgagttacgagacagatgctctcttgaaaaataattacagatttattgctttcttttcgcctatacacaaagaaatattgctgtattttacatcttagcagacagcaattatctgttgtttctttta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI0081:PI0082|PI0081:PI0082:hypothetical protein:conserved hypothetical protein (possible phosphoglycerol transferase):->->:80761..80914 154 taggttttgtaatacactggtatataatgagttacgagacagatgctctcttgaaaaataattacagatttattgctttcttttcgcctatacacaaagaaatattgctgtattttacatcttagcagacagcaattatctgttgtttctttta Intra-Species Hit: Count: 1 Min: 1 Max: 154 Len: 154 Subject: pint_PI0081_PI0082|hypothetical protein:conserved hypothetical protein (possible phosphoglycerol transferase)|POSITIVE:POSITIVE|[80761,80914]|154 HSP 1 e-value: 2.0E-82 bit: 305.0 Len: 154 Query Start:1 Query End:154 Subject Strand: POSITIVE Subject Start: 1 Subject End: 154 taggttttgtaatacactggtatataatgagttacgagacagatgctctcttgaaaaataattacagatttattgctttcttttcgcctatacacaaagaaatattgctgtattttacatcttagcagacagcaattatctgttgtttctttta taggttttgtaatacactggtatataatgagttacgagacagatgctctcttgaaaaataattacagatttattgctttcttttcgcctatacacaaagaaatattgctgtattttacatcttagcagacagcaattatctgttgtttctttta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGGUUUUGUAAUACACUGGUAUAUAAUGAGUUACGAGACAGAUGCUCUCUUGAAAAAUAAUUACAGAUUUAUUGCUUUCUUUUCGCCUAUACACAAAGAAAUAUUGCUGUAUUUUACAUCUUAGCAGACAGCAAUUAUCUGUUGUUUCUUUUA ...((((((((((.((.((.....)).)).)))))))))).............((((..(((.((((((..((((((((((((............))))))...((((((............))))))..)))))).)))))).)))..)))). (-29.10) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAAGAAACAACAGAUAAUUGCUGUCUGCUAAGAUGUAAAAUACAGCAAUAUUUCUUUGUGUAUAGGCGAAAAGAAAGCAAUAAAUCUGUAAUUAUUUUUCAAGAGAGCAUCUGUCUCGUAACUCAUUAUAUACCAGUGUAUUACAAAACCUA .............(((((..((((.(((...((((((.....(((((.....(((((((.(((....))).))))))).........)))))..))))))...))).))))..))))).((((..((((.......))))..))))........ (-29.14) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 389 90 41 142 91 pint:PI1339|5end_hypothetical_protein_1256671..1256901_POSITIVE 337 46 1 186 141 pint:PI0055|5end_hypothetical_protein_54815..55045_POSITIVE 337 46 1 98 53 pint:PI0053|5end_hypothetical_protein_54727..54957_POSITIVE 322 49 1 112 64 pint:PI2131|5end_hypothetical_protein_2080678..2080908_POSITIVE 322 92 52 41 1 pint:PI1340|5end_hypothetical_protein_1256568..1256798_POSITIVE 318 87 43 226 185 pint:PI0157|5end_hypothetical_protein_151185..151415_POSITIVE 318 87 43 83 42 pint:PI0158|5end_hypothetical_protein_151042..151272_POSITIVE 314 87 43 109 67 pint:PI0928|5end_hypothetical_protein_859851..860081_POSITIVE 306 113 73 231 191 pint:PI0841|5end_hypothetical_protein_775406..775636_POSITIVE 299 90 45 208 160 pint:PI0851|5end_hypothetical_protein_784310..784540_POSITIVE 299 50 1 122 75 pint:PI0755|5end_hypothetical_protein_686691..686921_POSITIVE 295 66 23 44 1 pint:PI0759|5end_hypothetical_protein_693763..693993_POSITIVE 294 90 41 153 104 pint:PI0182|5end_hypothetical_protein_174093..174323_POSITIVE 289 80 31 143 94 pint:PI0200|5end_hypothetical_protein_191545..191775_POSITIVE 282 48 9 216 180 pint:PI0965|5end_hypothetical_protein_894154..894384_POSITIVE 279 51 12 52 14 pint:PI1012|5end_DNA-binding_protein,_histone-like_family_933048..933278_POSITIVE 270 49 1 140 92 pint:PI1601|5end_hypothetical_protein_1530282..1530512_POSITIVE 268 89 43 60 18 pint:PI1814|5end_hypothetical_protein_1752953..1753183_POSITIVE 264 46 1 145 100 pint:PI1679|5end_hypothetical_protein_1594744..1594974_POSITIVE 264 49 1 123 75 pint:PI1666|5end_conserved_hypothetical_protein_1579231..1579461_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 337 46 1 120 75 pint:PI0054|3end_hypothetical_protein_54829..54979_POSITIVE 322 49 1 65 17 pint:PI2130|3end_DNA_polymerase_I_2080711..2080861_POSITIVE 295 90 44 78 38 pint:PI2172|3end_hypothetical_protein_2113991..2114141_POSITIVE 295 90 44 51 11 pint:PI2173|3end_hypothetical_protein_2113964..2114114_POSITIVE 291 47 1 89 41 pint:PI0669|3end_hypothetical_protein_611147..611297_POSITIVE 283 90 41 84 36 pint:PI0051|3end_hypothetical_protein_53388..53538_POSITIVE 270 49 1 53 5 pint:PI1600|3end_conserved_hypothetical_protein_1530275..1530425_POSITIVE 268 89 43 113 71 pint:PI1813|3end_hypothetical_protein_1753086..1753236_POSITIVE 250 47 1 95 47 pint:PI0688|3end_hypothetical_protein_625750..625900_POSITIVE 249 147 106 133 92 pint:PI0528|3end_hypothetical_protein_483122..483272_POSITIVE 248 49 1 55 7 pint:PI1566|3end_predicted_TPR-repeat-containing_protein_1489224..1489374_POSITIVE 248 36 1 85 47 pint:PI0186|3end_hypothetical_protein_178003..178153_POSITIVE 245 75 33 41 2 pint:PI1355|3end_possible_capsular_polysaccharide_biosynthesis_protein_1273160..1273310_POSITIVE 245 90 43 61 17 pint:PI0770|3end_hypothetical_protein_706354..706504_POSITIVE 243 149 104 113 43 pint:PI1883|3end_conserved_hypothetical_protein;_possible_surface_protein_1826174..1826324_POSITIVE 243 90 41 131 83 pint:PI1051|3end_hypothetical_protein_970228..970378_POSITIVE 243 53 17 122 80 pint:PI0097|3end_aspartate_aminotransferase_94682..94832_POSITIVE 241 98 52 71 28 pint:PI1424|3end_probable_peptidase_family_M48_1344044..1344194_POSITIVE 240 150 105 136 88 pint:PI2062|3end_type_I_restriction-modification_system_2024008..2024158_POSITIVE 240 150 105 59 8 pint:PI0831|3end_hypothetical_protein_768448..768598_POSITIVE