Origin IGS: cagaacgaagagcaagacaatcgggataatagcaataatcgcactcataatctatattctaaaagtctgttttgcgtgttgataatcattgaaattgctacaaagatagcttttttacgcacaaattgcataagattaatgttaaaatgtagataaaacaattgttttttcagtttcaaccgccactgttgtttctgcgtaggcgcatttgcattcggttttcagtaagccaaatatacgtcgtagaaacaaaaccgagaggaactactttcagttcttaaaacttttattacctttgtcgtaagtttatgcttttacagataaagtt .........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 aactttatctgtaaaagcataaacttacgacaaaggtaataaaagttttaagaactgaaagtagttcctctcggttttgtttctacgacgtatatttggcttactgaaaaccgaatgcaaatgcgcctacgcagaaacaacagtggcggttgaaactgaaaaaacaattgttttatctacattttaacattaatcttatgcaatttgtgcgtaaaaaagctatctttgtagcaatttcaatgattatcaacacgcaaaacagacttttagaatatagattatgagtgcgattattgctattatcccgattgtcttgctcttcgttctg Mask Tandem Repeat Region ================================================ cagaacgaagagcaagacaatcgggataatagcaataatcgcactcataatctatattctaaaagtctgttttgcgtgttgataatcattgaaattgctacaaagatagcttttttacgcacaaattgcataagattaatgttaaaatgtagataaaacaattgttttttcagtttcaaccgccactgttgtttctgcgtaggcgcatttgcattcggttttcagtaagccaaatatacgtcgtagaaacaaaaccgagaggaactactttcagttcttaaaacttttattacctttgtcgtaagtttatgcttttacagataaagtt Find is-nt database================================================ Query_seq: PI0108:PI0109|PI0108:PI0109:L-lactate permease:hypothetical protein:->->:106529..106856 328 cagaacgaagagcaagacaatcgggataatagcaataatcgcactcataatctatattctaaaagtctgttttgcgtgttgataatcattgaaattgctacaaagatagcttttttacgcacaaattgcataagattaatgttaaaatgtagataaaacaattgttttttcagtttcaaccgccactgttgtttctgcgtaggcgcatttgcattcggttttcagtaagccaaatatacgtcgtagaaacaaaaccgagaggaactactttcagttcttaaaacttttattacctttgtcgtaagtttatgcttttacagataaagtt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0108:PI0109|PI0108:PI0109:L-lactate permease:hypothetical protein:->->:106529..106856 328 cagaacgaagagcaagacaatcgggataatagcaataatcgcactcataatctatattctaaaagtctgttttgcgtgttgataatcattgaaattgctacaaagatagcttttttacgcacaaattgcataagattaatgttaaaatgtagataaaacaattgttttttcagtttcaaccgccactgttgtttctgcgtaggcgcatttgcattcggttttcagtaagccaaatatacgtcgtagaaacaaaaccgagaggaactactttcagttcttaaaacttttattacctttgtcgtaagtttatgcttttacagataaagtt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0108:PI0109|PI0108:PI0109:L-lactate permease:hypothetical protein:->->:106529..106856 328 cagaacgaagagcaagacaatcgggataatagcaataatcgcactcataatctatattctaaaagtctgttttgcgtgttgataatcattgaaattgctacaaagatagcttttttacgcacaaattgcataagattaatgttaaaatgtagataaaacaattgttttttcagtttcaaccgccactgttgtttctgcgtaggcgcatttgcattcggttttcagtaagccaaatatacgtcgtagaaacaaaaccgagaggaactactttcagttcttaaaacttttattacctttgtcgtaagtttatgcttttacagataaagtt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 cagaacgaagagcaagacaatcgggataatagcaataatcgcactcataatctatattctaaaagtctgttttgcgtgttgataatcattgaaattgctacaaagatagcttttttacgcacaaattgcataagattaatgttaaaatgtagataaaacaattgttttttcagtttcaaccgccactgttgtttctgcgtaggcgcatttgcattcggttttcagtaagccaaatatacgtcgtagaaacaaaaccgagaggaactactttcagttcttaaaacttttattacctttgtcgtaagtttatgcttttacagataaagtt Predict ORF larger than 30AA ================================================ Protein_Len: 42 Strand: + Start: 153 End: 278 ........................................................................................................................................................ M K Q L F F Q F Q P P L L F L R R R I C I R F S V S Q I Y V V E T K P R G T T F S S .................................................. Protein_Len: 31 Strand: + Start: 209 End: 301 ................................................................................................................................................................................................................ M H S V F S K P N I R R R N K T E R N Y F Q F L K L L L P L S ........................... Protein_Len: 32 Strand: - Start: 179 End: 274 .................................................................................................................................................................................. G G S N N R R L R M Q M R N E T L W I Y T T S V F G L P V V K M ...................................................... Protein_Len: 36 Strand: - Start: 145 End: 252 ................................................................................................................................................ F T S L V I T K E T E V A V T T E A Y A C K C E T K L L G F I R R L F M ............................................................................ Protein_Len: 44 Strand: - Start: 48 End: 179 ............................................... L R Y E L L R N Q T N I I M S I A V F I A K K R V F Q M L N I N F H L Y F L Q K K L K M ..................................................................................................................................................... cagaacgaagagcaagacaatcgggataatagcaataatcgcactcataatctatattctaaaagtctgttttgcgtgttgataatcattgaaattgctacaaagatagcttttttacgcacaaattgcataagattaatgttaaaatgtagataaaacaattgttttttcagtttcaaccgccactgttgtttctgcgtaggcgcatttgcattcggttttcagtaagccaaatatacgtcgtagaaacaaaaccgagaggaactactttcagttcttaaaacttttattacctttgtcgtaagtttatgcttttacagataaagtt 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================================================ cagaacgaagagcaagacaatcgggataatagcaataatcgcactcataatctatattctaaaagtctgttttgcgtgttgataatcattgaaattgctacaaagatagcttttttacgcacaaattgcataagattaatgttaaaatgtagataaaacaattgttttttcagtttcaaccgccactgttgtttctgcgtaggcgcatttgcattcggttttcagtaagccaaatatacgtcgtagaaacaaaaccgagaggaactactttcagttcttaaaacttttattacctttgtcgtaagtttatgcttttacagataaagtt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI0108:PI0109|PI0108:PI0109:L-lactate permease:hypothetical protein:->->:106529..106856 328 cagaacgaagagcaagacaatcgggataatagcaataatcgcactcataatctatattctaaaagtctgttttgcgtgttgataatcattgaaattgctacaaagatagcttttttacgcacaaattgcataagattaatgttaaaatgtagataaaacaattgttttttcagtttcaaccgccactgttgtttctgcgtaggcgcatttgcattcggttttcagtaagccaaatatacgtcgtagaaacaaaaccgagaggaactactttcagttcttaaaacttttattacctttgtcgtaagtttatgcttttacagataaagtt Intra-Species Hit: Count: 1 Min: 1 Max: 328 Len: 328 Subject: pint_PI0108_PI0109|L-lactate permease:hypothetical protein|POSITIVE:POSITIVE|[106529,106856]|328 HSP 1 e-value: 0.0 bit: 650.0 Len: 328 Query Start:1 Query End:328 Subject Strand: POSITIVE Subject Start: 1 Subject End: 328 cagaacgaagagcaagacaatcgggataatagcaataatcgcactcataatctatattctaaaagtctgttttgcgtgttgataatcattgaaattgctacaaagatagcttttttacgcacaaattgcataagattaatgttaaaatgtagataaaacaattgttttttcagtttcaaccgccactgttgtttctgcgtaggcgcatttgcattcggttttcagtaagccaaatatacgtcgtagaaacaaaaccgagaggaactactttcagttcttaaaacttttattacctttgtcgtaagtttatgcttttacagataaagtt cagaacgaagagcaagacaatcgggataatagcaataatcgcactcataatctatattctaaaagtctgttttgcgtgttgataatcattgaaattgctacaaagatagcttttttacgcacaaattgcataagattaatgttaaaatgtagataaaacaattgttttttcagtttcaaccgccactgttgtttctgcgtaggcgcatttgcattcggttttcagtaagccaaatatacgtcgtagaaacaaaaccgagaggaactactttcagttcttaaaacttttattacctttgtcgtaagtttatgcttttacagataaagtt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CAGAACGAAGAGCAAGACAAUCGGGAUAAUAGCAAUAAUCGCACUCAUAAUCUAUAUUCUAAAAGUCUGUUUUGCGUGUUGAUAAUCAUUGAAAUUGCUACAAAGAUAGCUUUUUUACGCACAAAUUGCAUAAGAUUAAUGUUAAAAUGUAGAUAAAACAAUUGUUUUUUCAGUUUCAACCGCCACUGUUGUUUCUGCGUAGGCGCAUUUGCAUUCGGUUUUCAGUAAGCCAAAUAUACGUCGUAGAAACAAAACCGAGAGGAACUACUUUCAGUUCUUAAAACUUUUAUUACCUUUGUCGUAAGUUUAUGCUUUUACAGAUAAAGUU .(((((..((((((.(((..(..(((((.(((...................))))))))..)..)))))))))(((.((((((((((..(((((..((((......))))..))))).(((.....)))....))))).............((.(((((....))))).))....)))))))).....(((((((((((..(..((....))....(((((.....))))).......)..)))))))))))....(((((......))))).)))))...............((((((((((((........))))).))))))).. (-69.81) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AACUUUAUCUGUAAAAGCAUAAACUUACGACAAAGGUAAUAAAAGUUUUAAGAACUGAAAGUAGUUCCUCUCGGUUUUGUUUCUACGACGUAUAUUUGGCUUACUGAAAACCGAAUGCAAAUGCGCCUACGCAGAAACAACAGUGGCGGUUGAAACUGAAAAAACAAUUGUUUUAUCUACAUUUUAACAUUAAUCUUAUGCAAUUUGUGCGUAAAAAAGCUAUCUUUGUAGCAAUUUCAAUGAUUAUCAACACGCAAAACAGACUUUUAGAAUAUAGAUUAUGAGUGCGAUUAUUGCUAUUAUCCCGAUUGUCUUGCUCUUCGUUCUG ......(((((((..........((((.(((.............))).))))..((((((((..............((((((((.((.(((((((((((.((.....)).))))))....)))))....)).))))))))..((.((((((((....((.(((((....))))).))..........((((....(((((((.....)))))))....(((((....)))))......))))....))))).)))...))..))))))))..)))))))...(((((.(((.((((.........)))).))).)))))......... (-63.92) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 378 230 181 80 19 pint:PI1647|5end_hypothetical_protein_1561564..1561794_POSITIVE 361 220 171 123 74 pint:PI2175|5end_RNA_polymerase_sigma-54_2115007..2115237_POSITIVE 341 224 182 207 165 pint:PI2104|5end_carboxyl-terminal_protease_2057910..2058140_POSITIVE 341 229 181 95 33 pint:PI0734|5end_ABC_transporter,_ATP-binding_/_permease_667052..667282_POSITIVE 337 218 179 62 8 pint:PI0540|5end_conserved_hypothetical_protein_492955..493185_POSITIVE 335 230 182 61 17 pint:PI2159|5end_immunoreactive_84_kDa_antigen_PG93_2105267..2105497_POSITIVE 327 230 182 127 84 pint:PI2062|5end_type_I_restriction-modification_system_2021658..2021888_POSITIVE 325 207 165 70 17 pint:PI1578|5end_rod_shape-determining_protein_1504188..1504418_POSITIVE 325 206 174 30 1 pint:PI1171|5end_hypothetical_protein_1091328..1091558_POSITIVE 318 218 173 178 131 pint:PI0264|5end_transfer_region-related_protein,_TraN_256494..256724_POSITIVE 316 219 176 217 162 pint:PI2024|5end_hypothetical_protein_1978804..1979034_POSITIVE 316 224 181 210 152 pint:PI0617|5end_electron_transfer_flavoprotein,_alpha_subunit_566367..566597_POSITIVE 315 231 197 151 105 pint:PI0331|5end_hypothetical_protein_311656..311886_POSITIVE 314 218 173 189 135 pint:PI1626|5end_hypothetical_protein_1550194..1550424_POSITIVE 313 205 161 141 93 pint:PI0573|5end_aminopeptidase_C_(bleomycin_hydrolase)_517832..518062_POSITIVE 312 224 182 172 121 pint:PI0285|5end_succinyltransferase_protein_270097..270327_POSITIVE 310 229 186 186 131 pint:PI1831|5end_conserved_hypothetical_protein_1770298..1770528_POSITIVE 310 217 180 101 49 pint:PI0093|5end_riboflavin_biosynthesis_protein_90489..90719_POSITIVE 309 219 174 190 136 pint:PI0333|5end_hypothetical_protein_313478..313708_POSITIVE 309 227 181 164 111 pint:PI0179|5end_hypothetical_protein_171757..171987_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 341 224 182 151 109 pint:PI2103|3end_hypothetical_protein_2057934..2058084_POSITIVE 335 230 182 61 17 pint:PI2158|3end_glycosyl_transferase,_group_2_family_protein_2105347..2105497_POSITIVE 311 220 178 137 102 pint:PI0683|3end_hypothetical_protein_619797..619947_POSITIVE 308 238 195 44 5 pint:PI2061|3end_type_I_restriction_enzyme_restriction_subunit_2021647..2021797_POSITIVE 301 203 161 149 101 pint:PI1933|3end_hypothetical_protein_1880463..1880613_POSITIVE 300 219 173 99 40 pint:PI0905|3end_hypothetical_protein_834697..834847_POSITIVE 299 230 181 75 18 pint:PI0787|3end_glycosyltransferase_725793..725943_POSITIVE 297 219 172 77 17 pint:PI0560|3end_hypothetical_protein_508910..509060_POSITIVE 296 220 171 103 37 pint:PI2117|3end_fumarate_reductase/succinate_dehydrogenase_flavoprotein_subunit,_C-terminal_2066684..2066834_POSITIVE 296 220 172 60 9 pint:PI1253|3end_hypothetical_protein_1175691..1175841_POSITIVE 295 220 172 148 91 pint:PI0284|3end_flavoprotein_A_270157..270307_POSITIVE 294 230 185 142 101 pint:PI1773|3end_alpha-amylase_(neopullulanase)_1706107..1706257_POSITIVE 294 230 181 103 55 pint:PI0300|3end_transposase_285761..285911_POSITIVE 293 215 173 135 85 pint:PI1651|3end_hypothetical_protein_1564512..1564662_POSITIVE 291 227 187 67 28 pint:PI2089|3end_conserved_hypothetical_protein_2047650..2047800_POSITIVE 290 229 181 72 28 pint:PI0700|3end_UDP-glucose_4-epimerase_638413..638563_POSITIVE 288 227 183 93 32 pint:PI1631|3end_hypothetical_protein_1552797..1552947_POSITIVE 288 220 178 145 85 pint:PI0692|3end_iron_compound_ABC_transporter,_permease_protein_628269..628419_POSITIVE 288 198 157 139 96 pint:PI0087|3end_conserved_hypothetical_protein_86733..86883_POSITIVE 287 219 173 102 64 pint:PI0356|3end_hypothetical_protein_327288..327438_POSITIVE