Origin IGS: ttgcgaacttagcgaagttgctgttgtagacaattacttttttgccgtcttgctcgtttagagtccacgaaacgctgcctggaccacctgttgcgttagcgaaggtaccgttaacggaaggtgtgctcgacttgaagctgacgttacgaatgacgccgagtttacccgcatctttttcaaatgtccaattagtgctggcagaaccatttgcaaactcttcagcctctacgagattacccgaagaaagaatcttata .........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 tataagattctttcttcgggtaatctcgtagaggctgaagagtttgcaaatggttctgccagcactaattggacatttgaaaaagatgcgggtaaactcggcgtcattcgtaacgtcagcttcaagtcgagcacaccttccgttaacggtaccttcgctaacgcaacaggtggtccaggcagcgtttcgtggactctaaacgagcaagacggcaaaaaagtaattgtctacaacagcaacttcgctaagttcgcaa Mask Tandem Repeat Region ================================================ ttgcgaacttagcgaagttgctgttgtagacaattacttttttgccgtcttgctcgtttagagtccacgaaacgctgcctggaccacctgttgcgttagcgaaggtaccgttaacggaaggtgtgctcgacttgaagctgacgttacgaatgacgccgagtttacccgcatctttttcaaatgtccaattagtgctggcagaaccatttgcaaactcttcagcctctacgagattacccgaagaaagaatcttata Find is-nt database================================================ Query_seq: PI0953:PI0954|PI0953:PI0954:hypothetical protein:hypothetical protein:->->:885451..885706 256 ttgcgaacttagcgaagttgctgttgtagacaattacttttttgccgtcttgctcgtttagagtccacgaaacgctgcctggaccacctgttgcgttagcgaaggtaccgttaacggaaggtgtgctcgacttgaagctgacgttacgaatgacgccgagtttacccgcatctttttcaaatgtccaattagtgctggcagaaccatttgcaaactcttcagcctctacgagattacccgaagaaagaatcttata Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0953:PI0954|PI0953:PI0954:hypothetical protein:hypothetical protein:->->:885451..885706 256 ttgcgaacttagcgaagttgctgttgtagacaattacttttttgccgtcttgctcgtttagagtccacgaaacgctgcctggaccacctgttgcgttagcgaaggtaccgttaacggaaggtgtgctcgacttgaagctgacgttacgaatgacgccgagtttacccgcatctttttcaaatgtccaattagtgctggcagaaccatttgcaaactcttcagcctctacgagattacccgaagaaagaatcttata Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0953:PI0954|PI0953:PI0954:hypothetical protein:hypothetical protein:->->:885451..885706 256 ttgcgaacttagcgaagttgctgttgtagacaattacttttttgccgtcttgctcgtttagagtccacgaaacgctgcctggaccacctgttgcgttagcgaaggtaccgttaacggaaggtgtgctcgacttgaagctgacgttacgaatgacgccgagtttacccgcatctttttcaaatgtccaattagtgctggcagaaccatttgcaaactcttcagcctctacgagattacccgaagaaagaatcttata Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ttgcgaacttagcgaagttgctgttgtagacaattacttttttgccgtcttgctcgtttagagtccacgaaacgctgcctggaccacctgttgcgttagcgaaggtaccgttaacggaaggtgtgctcgacttgaagctgacgttacgaatgacgccgagtttacccgcatctttttcaaatgtccaattagtgctggcagaaccatttgcaaactcttcagcctctacgagattacccgaagaaagaatcttata Predict ORF larger than 30AA ================================================ Protein_Len: 60 Strand: + Start: 33 End: 254 ................................ M T F L P S C S F R V H E T L P G P P V A L A K V P L T E G V L D L K L T L R M T P S L P A S F S N V Q L V L A E P F A .. Protein_Len: 54 Strand: - Start: 61 End: 222 ............................................................ L G R F A A Q V V Q Q T L S P V T L P L H A R S S A S T V F S A S N V R M K K L H G I L A P L V M Q L S K M .................................. Protein_Len: 60 Strand: - Start: 2 End: 250 . V S G P G G T A N A F T G N V S P T S S K F S V N R I V G L K G A D K E F T W N T S A S G N A F E E A E V L N G S S L M ...... ttgcgaacttagcgaagttgctgttgtagacaattacttttttgccgtcttgctcgtttagagtccacgaaacgctgcctggaccacctgttgcgttagcgaaggtaccgttaacggaaggtgtgctcgacttgaagctgacgttacgaatgacgccgagtttacccgcatctttttcaaatgtccaattagtgctggcagaaccatttgcaaactcttcagcctctacgagattacccgaagaaagaatcttata 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================================================ ttgcgaacttagcgaagttgctgttgtagacaattacttttttgccgtcttgctcgtttagagtccacgaaacgctgcctggaccacctgttgcgttagcgaaggtaccgttaacggaaggtgtgctcgacttgaagctgacgttacgaatgacgccgagtttacccgcatctttttcaaatgtccaattagtgctggcagaaccatttgcaaactcttcagcctctacgagattacccgaagaaagaatcttata Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI0953:PI0954|PI0953:PI0954:hypothetical protein:hypothetical protein:->->:885451..885706 256 ttgcgaacttagcgaagttgctgttgtagacaattacttttttgccgtcttgctcgtttagagtccacgaaacgctgcctggaccacctgttgcgttagcgaaggtaccgttaacggaaggtgtgctcgacttgaagctgacgttacgaatgacgccgagtttacccgcatctttttcaaatgtccaattagtgctggcagaaccatttgcaaactcttcagcctctacgagattacccgaagaaagaatcttata Intra-Species Hit: Count: 1 Min: 1 Max: 256 Len: 256 Subject: pint_PI0953_PI0954|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[885451,885706]|256 HSP 1 e-value: 1.0E-143 bit: 507.0 Len: 256 Query Start:1 Query End:256 Subject Strand: POSITIVE Subject Start: 1 Subject End: 256 ttgcgaacttagcgaagttgctgttgtagacaattacttttttgccgtcttgctcgtttagagtccacgaaacgctgcctggaccacctgttgcgttagcgaaggtaccgttaacggaaggtgtgctcgacttgaagctgacgttacgaatgacgccgagtttacccgcatctttttcaaatgtccaattagtgctggcagaaccatttgcaaactcttcagcctctacgagattacccgaagaaagaatcttata ttgcgaacttagcgaagttgctgttgtagacaattacttttttgccgtcttgctcgtttagagtccacgaaacgctgcctggaccacctgttgcgttagcgaaggtaccgttaacggaaggtgtgctcgacttgaagctgacgttacgaatgacgccgagtttacccgcatctttttcaaatgtccaattagtgctggcagaaccatttgcaaactcttcagcctctacgagattacccgaagaaagaatcttata Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUGCGAACUUAGCGAAGUUGCUGUUGUAGACAAUUACUUUUUUGCCGUCUUGCUCGUUUAGAGUCCACGAAACGCUGCCUGGACCACCUGUUGCGUUAGCGAAGGUACCGUUAACGGAAGGUGUGCUCGACUUGAAGCUGACGUUACGAAUGACGCCGAGUUUACCCGCAUCUUUUUCAAAUGUCCAAUUAGUGCUGGCAGAACCAUUUGCAAACUCUUCAGCCUCUACGAGAUUACCCGAAGAAAGAAUCUUAUA (((((((..(((((....)))))................(((((((.....((((.....))))........(((((..(((((.((((.((((....)))))))).........((((((((((...((((((.....(.(((((....))))))))))))....))))))))))......)))))..)))))..)))))))...)))))))..(((((.(.(((...))).....).)))))............ (-58.70) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAUAAGAUUCUUUCUUCGGGUAAUCUCGUAGAGGCUGAAGAGUUUGCAAAUGGUUCUGCCAGCACUAAUUGGACAUUUGAAAAAGAUGCGGGUAAACUCGGCGUCAUUCGUAACGUCAGCUUCAAGUCGAGCACACCUUCCGUUAACGGUACCUUCGCUAACGCAACAGGUGGUCCAGGCAGCGUUUCGUGGACUCUAAACGAGCAAGACGGCAAAAAAGUAAUUGUCUACAACAGCAACUUCGCUAAGUUCGCAA ..........(((((.((((....)))).)))))....((((((..((((((...(((((.........(((((..........((((((((....))).))))).............((((......)))).(((((..(((((.(((.....))).)))))....)))))))))))))))))))).)..))))))...(((((.....(((((........)))))......(((......)))..)))))... (-67.90) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 412 138 93 51 12 pint:PI0046|5end_thiamine_monophosphate_synthase_(thiamine-phosphate_pyrophosphorylase)_45353..45583_POSITIVE 406 238 191 107 56 pint:PI1550|5end_conserved_hypothetical_protein_1467360..1467590_POSITIVE 396 127 83 206 150 pint:PI0260|5end_conjugative_transposon_protein,_TraJ_253023..253253_POSITIVE 385 120 73 81 25 pint:PI0810|5end_hypothetical_protein_746743..746973_POSITIVE 385 120 73 76 20 pint:PI0811|5end_protease/hemagglutinin_PrtT,_streptopain_family_746738..746968_POSITIVE 372 123 81 106 67 pint:PI0519|5end_5'-nucleotidase/2',3'-cyclic_phosphodiesterase_477953..478183_POSITIVE 367 129 84 198 153 pint:PI0932|5end_conserved_hypothetical_protein;_possible_hemin_receptor_863854..864084_POSITIVE 365 110 63 129 73 pint:PI1769|5end_hypothetical_protein_1696507..1696737_POSITIVE 364 118 75 43 4 pint:PI0756|5end_50S_ribosomal_protein_L7/L12_687146..687376_POSITIVE 360 103 62 130 84 pint:PI0906|5end_hypothetical_protein_835653..835883_POSITIVE 360 170 121 88 21 pint:PI0571|5end_conserved_hypothetical_protein;_possible_permease_515161..515391_POSITIVE 357 110 68 59 19 pint:PI0563|5end_possible_integral_membrane_protein_510248..510478_POSITIVE 354 105 65 45 2 pint:PI2078|5end_hypothetical_protein_2036053..2036283_POSITIVE 353 118 74 189 145 pint:PI0088|5end_S-adenosylmethionine_synthetase_86663..86893_POSITIVE 351 109 61 153 101 pint:PI1575|5end_LemA_protein_1501143..1501373_POSITIVE 348 241 205 55 8 pint:PI1778|5end_UDP-N-acetylglucosamine_1-carboxyvinyltransferase_1710009..1710239_POSITIVE 348 117 73 67 13 pint:PI1312|5end_conserved_hypothetical_protein_1228851..1229081_POSITIVE 348 129 84 207 170 pint:PI0596|5end_hypothetical_protein_546400..546630_POSITIVE 344 108 66 76 32 pint:PI1837|5end_aspartate_ammonia-lyase_1778953..1779183_POSITIVE 344 120 74 74 20 pint:PI1799|5end_30S_ribosomal_protein_S2_1732900..1733130_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 412 138 93 43 4 pint:PI0045|3end_thiamine_biosynthesis_protein_45425..45575_POSITIVE 396 127 83 146 90 pint:PI0259|3end_conserved_protein_found_in_conjugation,_TraI_253043..253193_POSITIVE 366 238 197 49 2 pint:PI1549|3end_conserved_hypothetical_protein_1467382..1467532_POSITIVE 356 147 109 101 54 pint:PI1790|3end_hypothetical_protein_1722762..1722912_POSITIVE 354 112 74 58 19 pint:PI0999|3end_hypothetical_protein_922812..922962_POSITIVE 353 169 124 64 3 pint:PI1572|3end_hypothetical_protein_1498215..1498365_POSITIVE 349 119 71 78 22 pint:PI0675|3end_hypothetical_protein_613957..614107_POSITIVE 348 129 84 133 96 pint:PI0595|3end_conserved_hypothetical_protein_546406..546556_POSITIVE 346 128 86 110 59 pint:PI1521|3end_hypothetical_protein_1441461..1441611_POSITIVE 344 110 62 79 6 pint:PI0431|3end_Xaa-Pro_aminopeptidase_404673..404823_POSITIVE 340 130 82 122 74 pint:PI0249|3end_conserved_hypothetical_protein_247026..247176_POSITIVE 333 140 93 90 38 pint:PI0760|3end_ATP-dependent_RNA_helicase,_DEAD/DEAH_box_family_695989..696139_POSITIVE 328 113 75 133 83 pint:PI2132|3end_hypothetical_protein_2081139..2081289_POSITIVE 328 128 82 141 101 pint:PI1666|3end_conserved_hypothetical_protein_1579418..1579568_POSITIVE 323 140 91 114 49 pint:PI2129|3end_octaprenyl-diphosphate_synthase_2077721..2077871_POSITIVE 323 104 61 151 104 pint:PI1574|3end_conserved_hypothetical_protein_1501226..1501376_POSITIVE 322 90 45 141 83 pint:PI0998|3end_possible_flavin_reductase_domain_protein_923336..923486_POSITIVE 321 241 206 47 1 pint:PI1777|3end_conserved_hypothetical_protein_1710081..1710231_POSITIVE 321 160 114 76 30 pint:PI1136|3end_conserved_hypothetical_protein_1062541..1062691_POSITIVE 316 169 121 146 96 pint:PI2155|3end_hypothetical_protein_2101052..2101202_POSITIVE