Origin IGS: taatcgagccaactcgacgatgtgtagcttttgcttatgcgttggtattcttcgtcgtttgcgagcagttgttggcggttggcttgccaaagttgttcaaattcctgttctgtca .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tgacagaacaggaatttgaacaactttggcaagccaaccgccaacaactgctcgcaaacgacgaagaataccaacgcataagcaaaagctacacatcgtcgagttggctcgatta Mask Tandem Repeat Region ================================================ taatcgagccaactcgacgatgtgtagcttttgcttatgcgttggtattcttcgtcgtttgcgagcagttgttggcggttggcttgccaaagttgttcaaattcctgttctgtca Find is-nt database================================================ Query_seq: PI0681:PI0683|PI0681:PI0683:hypothetical protein:hypothetical protein:->->:619317..619431 115 taatcgagccaactcgacgatgtgtagcttttgcttatgcgttggtattcttcgtcgtttgcgagcagttgttggcggttggcttgccaaagttgttcaaattcctgttctgtca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0681:PI0683|PI0681:PI0683:hypothetical protein:hypothetical protein:->->:619317..619431 115 taatcgagccaactcgacgatgtgtagcttttgcttatgcgttggtattcttcgtcgtttgcgagcagttgttggcggttggcttgccaaagttgttcaaattcctgttctgtca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0681:PI0683|PI0681:PI0683:hypothetical protein:hypothetical protein:->->:619317..619431 115 taatcgagccaactcgacgatgtgtagcttttgcttatgcgttggtattcttcgtcgtttgcgagcagttgttggcggttggcttgccaaagttgttcaaattcctgttctgtca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taatcgagccaactcgacgatgtgtagcttttgcttatgcgttggtattcttcgtcgtttgcgagcagttgttggcggttggcttgccaaagttgttcaaattcctgttctgtca Predict ORF larger than 30AA ================================================ Protein_Len: 37 Strand: + Start: 3 End: 113 .. M E P T R R C V A F A Y A L V F F V V C E Q L L A V G L P K L F K F L F C .. Protein_Len: 32 Strand: + Start: 20 End: 115 ................... M C S F C L C V G I L R R L R A V V G G W L A K V V Q I P V L S Protein_Len: 30 Strand: - Start: 1 End: 90 L R A L E V I H L K Q K H T P I R R R K R A T T P P Q S A M ......................... taatcgagccaactcgacgatgtgtagcttttgcttatgcgttggtattcttcgtcgtttgcgagcagttgttggcggttggcttgccaaagttgttcaaattcctgttctgtca 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================================================ taatcgagccaactcgacgatgtgtagcttttgcttatgcgttggtattcttcgtcgtttgcgagcagttgttggcggttggcttgccaaagttgttcaaattcctgttctgtca Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI0681:PI0683|PI0681:PI0683:hypothetical protein:hypothetical protein:->->:619317..619431 115 taatcgagccaactcgacgatgtgtagcttttgcttatgcgttggtattcttcgtcgtttgcgagcagttgttggcggttggcttgccaaagttgttcaaattcctgttctgtca Intra-Species Hit: Count: 1 Min: 1 Max: 115 Len: 115 Subject: pint_PI0681_PI0683|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[619317,619431]|115 HSP 1 e-value: 3.0E-59 bit: 228.0 Len: 115 Query Start:1 Query End:115 Subject Strand: POSITIVE Subject Start: 1 Subject End: 115 taatcgagccaactcgacgatgtgtagcttttgcttatgcgttggtattcttcgtcgtttgcgagcagttgttggcggttggcttgccaaagttgttcaaattcctgttctgtca taatcgagccaactcgacgatgtgtagcttttgcttatgcgttggtattcttcgtcgtttgcgagcagttgttggcggttggcttgccaaagttgttcaaattcctgttctgtca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUCGAGCCAACUCGACGAUGUGUAGCUUUUGCUUAUGCGUUGGUAUUCUUCGUCGUUUGCGAGCAGUUGUUGGCGGUUGGCUUGCCAAAGUUGUUCAAAUUCCUGUUCUGUCA ....(((((((((.((((((...(((.((..(((....)))..)))))...))))))...((.(((....))).)).)))))))))............................. (-33.20) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGACAGAACAGGAAUUUGAACAACUUUGGCAAGCCAACCGCCAACAACUGCUCGCAAACGACGAAGAAUACCAACGCAUAAGCAAAAGCUACACAUCGUCGAGUUGGCUCGAUUA .........................((((....))))..((((((...((....))..((((((.(.....)........(((....))).....)))))).))))))....... (-22.00) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 431 80 32 188 134 pint:PI0361|5end_hypothetical_protein_333062..333292_POSITIVE 396 88 41 180 126 pint:PI0583|5end_hypothetical_protein_525948..526178_POSITIVE 384 98 52 167 123 pint:PI0672|5end_conserved_hypothetical_protein_611746..611976_POSITIVE 377 77 33 175 124 pint:PI0094|5end_protoporphyrinogen_oxidase_89571..89801_POSITIVE 377 77 33 101 50 pint:PI0091|5end_hypothetical_protein_89497..89727_POSITIVE 372 88 45 56 9 pint:PI1625|5end_conserved_hypothetical_protein;_possible_phage_transposase_1549316..1549546_POSITIVE 372 88 45 56 9 pint:PI0332|5end_conserved_hypothetical_protein_312600..312830_POSITIVE 357 90 42 91 32 pint:PI1950|5end_iron-regulated_membrane_permease_1904468..1904698_POSITIVE 350 77 31 65 22 pint:PI1687|5end_ribosome_recycling_factor_1602307..1602537_POSITIVE 348 80 31 216 155 pint:PI2155|5end_hypothetical_protein_2100664..2100894_POSITIVE 346 99 52 170 120 pint:PI2135|5end_conserved_hypothetical_protein_2082754..2082984_POSITIVE 343 98 57 55 11 pint:PI1580|5end_conserved_hypothetical_protein_1507833..1508063_POSITIVE 341 90 50 109 69 pint:PI2107|5end_hypothetical_protein_2059704..2059934_POSITIVE 341 90 50 66 26 pint:PI2108|5end_cell_surface_protein;_possible_cell_surface_antigen_BspA_2059661..2059891_POSITIVE 338 80 33 44 1 pint:PI1634|5end_conserved_hypothetical_protein_1553179..1553409_POSITIVE 338 80 33 44 1 pint:PI0340|5end_conserved_hypothetical_protein_316095..316325_POSITIVE 338 89 41 211 160 pint:PI0052|5end_hypothetical_protein_52312..52542_POSITIVE 337 76 31 113 50 pint:PI0038|5end_transcriptional_regulator,_LysR_family_39578..39808_POSITIVE 335 74 31 97 61 pint:PI2100|5end_conserved_hypothetical_protein_2053351..2053581_POSITIVE 335 90 50 199 156 pint:PI1864|5end_chromate_transport_protein_1810318..1810548_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 384 98 52 148 104 pint:PI0671|3end_hypothetical_protein_611807..611957_POSITIVE 367 89 57 127 89 pint:PI0043|3end_thiamine_phosphate_pyrophosphorylase_43156..43306_POSITIVE 357 90 42 73 14 pint:PI1949|3end_aminotransferase,_class_V_1904530..1904680_POSITIVE 352 98 51 144 94 pint:PI0258|3end_conjugative_transposon_protein,_TraG_252285..252435_POSITIVE 349 79 31 132 79 pint:PI1408|3end_glucose-1-phosphate_thymidylyltransferase_1329761..1329911_POSITIVE 346 99 52 146 96 pint:PI2134|3end_hypothetical_protein_2082810..2082960_POSITIVE 343 98 57 55 11 pint:PI1579|3end_penicillin-binding_protein_2_1507913..1508063_POSITIVE 342 77 31 123 71 pint:PI1143|3end_hypothetical_protein_1070504..1070654_POSITIVE 337 76 31 71 8 pint:PI0037|3end_hypothetical_protein_39616..39766_POSITIVE 330 96 53 108 65 pint:PI0592|3end_DNA_mismatch_repair_protein_542611..542761_POSITIVE 329 79 32 138 99 pint:PI0595|3end_conserved_hypothetical_protein_546406..546556_POSITIVE 327 95 59 151 95 pint:PI0601|3end_hypothetical_protein_549020..549170_POSITIVE 326 106 66 112 63 pint:PI1651|3end_hypothetical_protein_1564512..1564662_POSITIVE 326 76 33 132 79 pint:PI1487|3end_hypothetical_protein_1407940..1408090_POSITIVE 326 89 45 63 23 pint:PI0257|3end_conjugative_transposon_protein,_TraF_249802..249952_POSITIVE 318 46 6 126 74 pint:PI1048|3end_1,4-dihydroxy-2-naphthoate_octaprenyltransferase_967193..967343_POSITIVE 318 77 33 142 94 pint:PI0516|3end_ferredoxin,_4Fe-4S_476108..476258_POSITIVE 317 66 26 123 76 pint:PI2157|3end_xanthosine_triphosphate_pyrophosphatase,_HAM1_family_2104457..2104607_POSITIVE 316 99 51 91 35 pint:PI2075|3end_conserved_hypothetical_protein_2035355..2035505_POSITIVE 316 93 59 70 39 pint:PI0888|3end_hypothetical_protein_818613..818763_POSITIVE