Origin IGS: caatcctactcccgcacccaattccattttatattcttcgccgtcctgcgcctgaacaggggcagaagcaatgaagagcaatatataaaagaggatacgtttcatttctttacttttattcttgttggttgtgaaaggttctctacagctttacaaccacccttgaaagttta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taaactttcaagggtggttgtaaagctgtagagaacctttcacaaccaacaagaataaaagtaaagaaatgaaacgtatcctcttttatatattgctcttcattgcttctgcccctgttcaggcgcaggacggcgaagaatataaaatggaattgggtgcgggagtaggattg Mask Tandem Repeat Region ================================================ caatcctactcccgcacccaattccattttatattcttcgccgtcctgcgcctgaacaggggcagaagcaatgaagagcaatatataaaagaggatacgtttcatttctttacttttattcttgttggttgtgaaaggttctctacagctttacaaccacccttgaaagttta Find is-nt database================================================ Query_seq: PI0126:PI0127|PI0126:PI0127:conserved hypothetical protein:conserved hypothetical protein:->->:118650..118822 173 caatcctactcccgcacccaattccattttatattcttcgccgtcctgcgcctgaacaggggcagaagcaatgaagagcaatatataaaagaggatacgtttcatttctttacttttattcttgttggttgtgaaaggttctctacagctttacaaccacccttgaaagttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0126:PI0127|PI0126:PI0127:conserved hypothetical protein:conserved hypothetical protein:->->:118650..118822 173 caatcctactcccgcacccaattccattttatattcttcgccgtcctgcgcctgaacaggggcagaagcaatgaagagcaatatataaaagaggatacgtttcatttctttacttttattcttgttggttgtgaaaggttctctacagctttacaaccacccttgaaagttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0126:PI0127|PI0126:PI0127:conserved hypothetical protein:conserved hypothetical protein:->->:118650..118822 173 caatcctactcccgcacccaattccattttatattcttcgccgtcctgcgcctgaacaggggcagaagcaatgaagagcaatatataaaagaggatacgtttcatttctttacttttattcttgttggttgtgaaaggttctctacagctttacaaccacccttgaaagttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 caatcctactcccgcacccaattccattttatattcttcgccgtcctgcgcctgaacaggggcagaagcaatgaagagcaatatataaaagaggatacgtttcatttctttacttttattcttgttggttgtgaaaggttctctacagctttacaaccacccttgaaagttta Predict ORF larger than 30AA ================================================ Protein_Len: 47 Strand: + Start: 31 End: 171 .............................. M F F A V L R L N R G R S N E E Q Y I K E D T F H F F T F I L V G C E R F S T A L Q P P L K V .. Protein_Len: 35 Strand: - Start: 1 End: 105 L G V G A G L E M K Y E E G D Q A Q V P A S A I F L L I Y F L I R K M .................................................................... caatcctactcccgcacccaattccattttatattcttcgccgtcctgcgcctgaacaggggcagaagcaatgaagagcaatatataaaagaggatacgtttcatttctttacttttattcttgttggttgtgaaaggttctctacagctttacaaccacccttgaaagttta 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================================================ caatcctactcccgcacccaattccattttatattcttcgccgtcctgcgcctgaacaggggcagaagcaatgaagagcaatatataaaagaggatacgtttcatttctttacttttattcttgttggttgtgaaaggttctctacagctttacaaccacccttgaaagttta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI0126:PI0127|PI0126:PI0127:conserved hypothetical protein:conserved hypothetical protein:->->:118650..118822 173 caatcctactcccgcacccaattccattttatattcttcgccgtcctgcgcctgaacaggggcagaagcaatgaagagcaatatataaaagaggatacgtttcatttctttacttttattcttgttggttgtgaaaggttctctacagctttacaaccacccttgaaagttta Intra-Species Hit: Count: 1 Min: 1 Max: 173 Len: 173 Subject: pint_PI0126_PI0127|conserved hypothetical protein:conserved hypothetical protein|POSITIVE:POSITIVE|[118650,118822]|173 HSP 1 e-value: 1.0E-93 bit: 343.0 Len: 173 Query Start:1 Query End:173 Subject Strand: POSITIVE Subject Start: 1 Subject End: 173 caatcctactcccgcacccaattccattttatattcttcgccgtcctgcgcctgaacaggggcagaagcaatgaagagcaatatataaaagaggatacgtttcatttctttacttttattcttgttggttgtgaaaggttctctacagctttacaaccacccttgaaagttta caatcctactcccgcacccaattccattttatattcttcgccgtcctgcgcctgaacaggggcagaagcaatgaagagcaatatataaaagaggatacgtttcatttctttacttttattcttgttggttgtgaaaggttctctacagctttacaaccacccttgaaagttta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CAAUCCUACUCCCGCACCCAAUUCCAUUUUAUAUUCUUCGCCGUCCUGCGCCUGAACAGGGGCAGAAGCAAUGAAGAGCAAUAUAUAAAAGAGGAUACGUUUCAUUUCUUUACUUUUAUUCUUGUUGGUUGUGAAAGGUUCUCUACAGCUUUACAACCACCCUUGAAAGUUUA ......................(((.((((((((((((((..((.((((.(((....))).))))..))..)))))).....))))))))..)))................(((((((.....(.((((((((((..((.....))...)))))))))).)..)))))))... (-38.40) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAACUUUCAAGGGUGGUUGUAAAGCUGUAGAGAACCUUUCACAACCAACAAGAAUAAAAGUAAAGAAAUGAAACGUAUCCUCUUUUAUAUAUUGCUCUUCAUUGCUUCUGCCCCUGUUCAGGCGCAGGACGGCGAAGAAUAUAAAAUGGAAUUGGGUGCGGGAGUAGGAUUG ...(((..(..(..(((((((((((.(.......).)))).))))))).).........................((((((..((((((....((.(((((.(((.((((((.(((....))).))))))))).))))).))....))))))..)))))))..)))....... (-42.80) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 396 80 33 231 165 pint:PI2171|5end_conserved_hypothetical_protein_2112735..2112965_POSITIVE 364 80 39 206 162 pint:PI1675|5end_TonB-dependent_outer_membrane_receptor_1588107..1588337_POSITIVE 358 78 34 190 141 pint:PI0945|5end_sodium:solute_symporter_family_protein_876249..876479_POSITIVE 324 80 37 55 8 pint:PI0268|5end_lysozyme-related_protein_259198..259428_POSITIVE 322 80 41 90 45 pint:PI0741|5end_conserved_hypothetical_protein_672487..672717_POSITIVE 320 79 36 59 15 pint:PI1588|5end_DNA_polymerase_III,_epsilon_chain_1516302..1516532_POSITIVE 320 78 34 64 16 pint:PI0716|5end_conserved_hypothetical_protein_652136..652366_POSITIVE 319 70 25 151 105 pint:PI1643|5end_conserved_hypothetical_protein_1560936..1561166_POSITIVE 318 87 47 111 55 pint:PI0845|5end_peptidyl-dipeptidase_778272..778502_POSITIVE 315 82 42 68 22 pint:PI1810|5end_outer_membrane_protein_1748305..1748535_POSITIVE 315 78 36 77 20 pint:PI0874|5end_conserved_hypothetical_protein_808978..809208_POSITIVE 313 83 46 151 114 pint:PI1849|5end_conserved_hypothetical_protein;_possible_acyltransferase_family_protein_1794916..1795146_POSITIVE 313 79 38 128 83 pint:PI0117|5end_ribonuclease_HI_110731..110961_POSITIVE 312 80 39 69 21 pint:PI0265|5end_conjugative_transposon_protein,_TraO_257296..257526_POSITIVE 310 64 38 229 205 pint:PI0864|5end_dihydrodipicolinate_synthase_800527..800757_POSITIVE 310 80 41 60 13 pint:PI0277|5end_hypothetical_protein_264980..265210_POSITIVE 310 78 45 64 32 pint:PI0224|5end_conserved_hypothetical_protein_220541..220771_POSITIVE 308 80 37 58 4 pint:PI2159|5end_immunoreactive_84_kDa_antigen_PG93_2105267..2105497_POSITIVE 308 79 36 184 136 pint:PI0092|5end_regulatory_protein_RecX_89080..89310_POSITIVE 306 77 34 231 191 pint:PI0715|5end_hypothetical_protein_652311..652541_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 335 51 11 49 12 pint:PI1633|3end_hypothetical_protein_1552955..1553105_POSITIVE 324 80 37 68 21 pint:PI0267|3end_conjugative_transposon_protein,_TraQ_259291..259441_POSITIVE 320 80 36 96 26 pint:PI0675|3end_hypothetical_protein_613957..614107_POSITIVE 318 87 47 75 19 pint:PI0844|3end_cytidine/deoxycytidylate_deaminase_(dCMP_deaminase)_778316..778466_POSITIVE 315 71 31 150 101 pint:PI1882|3end_hypothetical_protein_1826487..1826637_POSITIVE 314 96 58 88 47 pint:PI1245|3end_hypothetical_protein_1171492..1171642_POSITIVE 314 96 58 92 51 pint:PI1246|3end_conserved_hypothetical_protein;_possible_lipoprotein_1171496..1171646_POSITIVE 313 79 38 86 41 pint:PI0116|3end_conserved_hypothetical_protein_110769..110919_POSITIVE 312 77 41 148 110 pint:PI1612|3end_hypothetical_protein_1539945..1540095_POSITIVE 312 80 39 64 16 pint:PI0264|3end_transfer_region-related_protein,_TraN_257371..257521_POSITIVE 308 80 37 58 4 pint:PI2158|3end_glycosyl_transferase,_group_2_family_protein_2105347..2105497_POSITIVE 303 80 36 57 12 pint:PI0399|3end_conserved_hypothetical_protein_364090..364240_POSITIVE 301 75 34 149 105 pint:PI2085|3end_conserved_hypothetical_protein_2041803..2041953_POSITIVE 296 74 39 124 85 pint:PI1973|3end_conserved_hypothetical_protein_1931171..1931321_POSITIVE 292 170 121 66 11 pint:PI0166|3end_hypothetical_protein_161258..161408_POSITIVE 292 80 36 89 37 pint:PI0059|3end_peptide_chain_release_factor_RF-2_58171..58321_POSITIVE 285 79 40 58 9 pint:PI0040|3end_conserved_hypothetical_protein_(possible_integral_membrane_protein)_41872..42022_POSITIVE 282 79 39 88 48 pint:PI0654|3end_K+-dependent_Na+/Ca+_exchanger_related-protein_597223..597373_POSITIVE 280 56 13 45 5 pint:PI1944|3end_hypothetical_protein_1901990..1902140_POSITIVE 279 70 35 137 101 pint:PI0420|3end_hypothetical_protein_386828..386978_POSITIVE