Origin IGS: tagattgatagtggtagaagaggaggctatgcccactttttcgcagatgaacaactgctgtttaacagtgttgtattcaatagtttaagttgctttgacta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tagtcaaagcaacttaaactattgaatacaacactgttaaacagcagttgttcatctgcgaaaaagtgggcatagcctcctcttctaccactatcaatcta Mask Tandem Repeat Region ================================================ tagattgatagtggtagaagaggaggctatgcccactttttcgcagatgaacaactgctgtttaacagtgttgtattcaatagtttaagttgctttgacta Find is-nt database================================================ Query_seq: PI0928:PI0929|PI0928:PI0929:hypothetical protein:copper homeostasis protein:->->:860333..860433 101 tagattgatagtggtagaagaggaggctatgcccactttttcgcagatgaacaactgctgtttaacagtgttgtattcaatagtttaagttgctttgacta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0928:PI0929|PI0928:PI0929:hypothetical protein:copper homeostasis protein:->->:860333..860433 101 tagattgatagtggtagaagaggaggctatgcccactttttcgcagatgaacaactgctgtttaacagtgttgtattcaatagtttaagttgctttgacta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0928:PI0929|PI0928:PI0929:hypothetical protein:copper homeostasis protein:->->:860333..860433 101 tagattgatagtggtagaagaggaggctatgcccactttttcgcagatgaacaactgctgtttaacagtgttgtattcaatagtttaagttgctttgacta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tagattgatagtggtagaagaggaggctatgcccactttttcgcagatgaacaactgctgtttaacagtgttgtattcaatagtttaagttgctttgacta Predict ORF larger than 30AA ================================================ Protein_Len: 32 Strand: + Start: 4 End: 99 ... M D S G R R G G Y A H F F A D E Q L L F N S V V F N S L S C F D .. tagattgatagtggtagaagaggaggctatgcccactttttcgcagatgaacaactgctgtttaacagtgttgtattcaatagtttaagttgctttgacta 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================================================ tagattgatagtggtagaagaggaggctatgcccactttttcgcagatgaacaactgctgtttaacagtgttgtattcaatagtttaagttgctttgacta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI0928:PI0929|PI0928:PI0929:hypothetical protein:copper homeostasis protein:->->:860333..860433 101 tagattgatagtggtagaagaggaggctatgcccactttttcgcagatgaacaactgctgtttaacagtgttgtattcaatagtttaagttgctttgacta Intra-Species Hit: Count: 1 Min: 1 Max: 101 Len: 101 Subject: pint_PI0928_PI0929|hypothetical protein:copper homeostasis protein|POSITIVE:POSITIVE|[860333,860433]|101 HSP 1 e-value: 6.0E-51 bit: 200.0 Len: 101 Query Start:1 Query End:101 Subject Strand: POSITIVE Subject Start: 1 Subject End: 101 tagattgatagtggtagaagaggaggctatgcccactttttcgcagatgaacaactgctgtttaacagtgttgtattcaatagtttaagttgctttgacta tagattgatagtggtagaagaggaggctatgcccactttttcgcagatgaacaactgctgtttaacagtgttgtattcaatagtttaagttgctttgacta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGAUUGAUAGUGGUAGAAGAGGAGGCUAUGCCCACUUUUUCGCAGAUGAACAACUGCUGUUUAACAGUGUUGUAUUCAAUAGUUUAAGUUGCUUUGACUA ...(((((.....(..((((((..(((...)))..))))))..)......(((((.((((.....)))))))))..)))))......((((.....)))). (-23.60) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGUCAAAGCAACUUAAACUAUUGAAUACAACACUGUUAAACAGCAGUUGUUCAUCUGCGAAAAAGUGGGCAUAGCCUCCUCUUCUACCACUAUCAAUCUA ........(((...........((((((....((((((....))))))))))))..))).....(((((....((......))....)))))......... (-14.52) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 345 70 21 59 3 pint:PI0058|5end_conserved_hypothetical_protein_56398..56628_POSITIVE 320 60 13 224 167 pint:PI1739|5end_Na+-driven_multidrug_efflux_pump,_MATE_efflux_family_protein_1660177..1660407_POSITIVE 310 60 11 226 168 pint:PI0956|5end_conserved_hypothetical_protein_886077..886307_POSITIVE 306 54 11 216 162 pint:PI0253|5end_conjugative_transposon_protein,_TraD_248294..248524_POSITIVE 293 63 21 112 72 pint:PI2029|5end_DNA_topoisomerase_I_1982775..1983005_POSITIVE 292 50 11 51 15 pint:PI0780|5end_DNA_gyrase,_subunit_A_(DNA_topoisomerase_(ATP-hydrolyzing))_715902..716132_POSITIVE 284 59 11 228 169 pint:PI0770|5end_hypothetical_protein_706170..706400_POSITIVE 281 45 9 91 51 pint:PI0821|5end_conserved_hypothetical_protein_760063..760293_POSITIVE 279 96 56 88 49 pint:PI1756|5end_conserved_hypothetical_protein_1682627..1682857_POSITIVE 278 44 6 136 93 pint:PI0310|5end_outer_membrane_protein_291657..291887_POSITIVE 273 78 33 214 179 pint:PI1099|5end_low_molecular_weight_protein-tyrosine-phosphatase_1023059..1023289_POSITIVE 271 60 11 84 26 pint:PI0729|5end_integrase_661428..661658_POSITIVE 270 59 20 87 44 pint:PI0250|5end_hypothetical_protein_246946..247176_POSITIVE 266 83 41 83 21 pint:PI0812|5end_conserved_hypothetical_protein;_possible_ferredoxin_750185..750415_POSITIVE 260 60 11 77 37 pint:PI2076|5end_hypothetical_protein_2035403..2035633_POSITIVE 260 49 24 227 204 pint:PI0285|5end_succinyltransferase_protein_270097..270327_POSITIVE 260 68 21 182 133 pint:PI0037|5end_hypothetical_protein_39354..39584_POSITIVE 259 49 1 148 100 pint:PI0996|5end_hypothetical_protein_920458..920688_POSITIVE 259 58 11 107 66 pint:PI0906|5end_hypothetical_protein_835653..835883_POSITIVE 256 46 10 86 42 pint:PI1816|5end_acid_phosphatase_1754646..1754876_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 345 70 21 93 37 pint:PI0057|3end_conserved_hypothetical_protein_56512..56662_POSITIVE 320 60 13 79 22 pint:PI1738|3end_FKBP-type_peptidyl-prolyl_cis-trans_isomerase_1660112..1660262_POSITIVE 293 63 21 59 19 pint:PI2028|3end_shikimate_kinase_1982802..1982952_POSITIVE 292 55 11 147 95 pint:PI0955|3end_conserved_hypothetical_protein_886084..886234_POSITIVE 284 59 11 150 91 pint:PI0769|3end_phosphomannomutase_706172..706322_POSITIVE 279 49 12 54 22 pint:PI0810|3end_hypothetical_protein_747026..747176_POSITIVE 279 49 12 136 104 pint:PI0809|3end_hypothetical_protein_747108..747258_POSITIVE 278 60 12 127 74 pint:PI0800|3end_alanyl-tRNA_synthetase_(alanine--tRNA_ligase)_739331..739481_POSITIVE 278 44 6 128 85 pint:PI0309|3end_hypothetical_protein_291729..291879_POSITIVE 271 60 11 84 26 pint:PI0728|3end_integrase_661508..661658_POSITIVE 270 38 2 98 48 pint:PI0639|3end_small_heat_shock_protein_583165..583315_POSITIVE 270 59 20 87 44 pint:PI0249|3end_conserved_hypothetical_protein_247026..247176_POSITIVE 260 51 12 95 44 pint:PI1237|3end_ATP-dependent_DNA_helicase_1161480..1161630_POSITIVE 259 58 12 147 92 pint:PI1501|3end_GTP-binding_elongation_factor_family_protein_TypA/BipA_1423246..1423396_POSITIVE 255 60 20 68 30 pint:PI0906|3end_hypothetical_protein_836008..836158_POSITIVE 253 68 21 76 27 pint:PI1794|3end_conserved_hypothetical_protein_1726696..1726846_POSITIVE 253 58 22 111 59 pint:PI0183|3end_hypothetical_protein_174810..174960_POSITIVE 249 78 40 71 33 pint:PI0652|3end_conserved_hypothetical_protein_595792..595942_POSITIVE 245 79 31 90 39 pint:PI1927|3end_hypothetical_protein_1872046..1872196_POSITIVE 244 58 12 60 14 pint:PI1230|3end_probable_metallo-beta-lactamase_family_protein_1152729..1152879_POSITIVE