Origin IGS: aagagccgcttttaccgtgcaaaacctacgcttttggaatgcaaaacaataggttttgcaaagcgttgataattaagaggttgcgtgaaagctttgcttgtgaaaaatatttacgttttta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taaaaacgtaaatatttttcacaagcaaagctttcacgcaacctcttaattatcaacgctttgcaaaacctattgttttgcattccaaaagcgtaggttttgcacggtaaaagcggctctt Mask Tandem Repeat Region ================================================ aagagccgcttttaccgtgcaaaacctacgcttttggaatgcaaaacaataggttttgcaaagcgttgataattaagaggttgcgtgaaagctttgcttgtgaaaaatatttacgttttta Find is-nt database================================================ Query_seq: PI0560:PI0561|PI0560:PI0561:hypothetical protein:hypothetical protein:->->:508971..509091 121 aagagccgcttttaccgtgcaaaacctacgcttttggaatgcaaaacaataggttttgcaaagcgttgataattaagaggttgcgtgaaagctttgcttgtgaaaaatatttacgttttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0560:PI0561|PI0560:PI0561:hypothetical protein:hypothetical protein:->->:508971..509091 121 aagagccgcttttaccgtgcaaaacctacgcttttggaatgcaaaacaataggttttgcaaagcgttgataattaagaggttgcgtgaaagctttgcttgtgaaaaatatttacgttttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0560:PI0561|PI0560:PI0561:hypothetical protein:hypothetical protein:->->:508971..509091 121 aagagccgcttttaccgtgcaaaacctacgcttttggaatgcaaaacaataggttttgcaaagcgttgataattaagaggttgcgtgaaagctttgcttgtgaaaaatatttacgttttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aagagccgcttttaccgtgcaaaacctacgcttttggaatgcaaaacaataggttttgcaaagcgttgataattaagaggttgcgtgaaagctttgcttgtgaaaaatatttacgttttta Predict ORF larger than 30AA ================================================ Protein_Len: 32 Strand: - Start: 15 End: 110 .............. R A F G V S K S H L V I P K A F R Q Y N L P Q T F A K S T F F M ........... aagagccgcttttaccgtgcaaaacctacgcttttggaatgcaaaacaataggttttgcaaagcgttgataattaagaggttgcgtgaaagctttgcttgtgaaaaatatttacgttttta 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================================================ aagagccgcttttaccgtgcaaaacctacgcttttggaatgcaaaacaataggttttgcaaagcgttgataattaagaggttgcgtgaaagctttgcttgtgaaaaatatttacgttttta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI0560:PI0561|PI0560:PI0561:hypothetical protein:hypothetical protein:->->:508971..509091 121 aagagccgcttttaccgtgcaaaacctacgcttttggaatgcaaaacaataggttttgcaaagcgttgataattaagaggttgcgtgaaagctttgcttgtgaaaaatatttacgttttta Intra-Species Hit: Count: 3 Min: 1 Max: 121 Len: 121 Subject: pint_PI0560_PI0561|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[508971,509091]|121 HSP 1 e-value: 8.0E-63 bit: 240.0 Len: 121 Query Start:1 Query End:121 Subject Strand: POSITIVE Subject Start: 1 Subject End: 121 aagagccgcttttaccgtgcaaaacctacgcttttggaatgcaaaacaataggttttgcaaagcgttgataattaagaggttgcgtgaaagctttgcttgtgaaaaatatttacgttttta aagagccgcttttaccgtgcaaaacctacgcttttggaatgcaaaacaataggttttgcaaagcgttgataattaagaggttgcgtgaaagctttgcttgtgaaaaatatttacgttttta Subject: pint_PI0831_PI0832|hypothetical protein:sigma-54-dependent transcriptional regulator|POSITIVE:POSITIVE|[768509,768973]|465 HSP 1 e-value: 3.0E-28 bit: 125.0 Len: 111 Query Start:4 Query End:114 Subject Strand: NEGATIVE Subject Start: 122 Subject End: 232 ...agccgcttttaccgtgcaaaacctacgcttttggaatgcaaaacaataggttttgcaaagcgttgataattaagaggttgcgtgaaagctttgcttgtgaaaaatatttac....... ...agccgcttttaccgtgcaaaacctacgcttttggaacgcaaaacaataggttttacaaagcgttgataataaagcagttacgcaaaagatattgttgtgaaaaatatttac....... Subject: pint_PI1946_PI1948|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[1903081,1903223]|143 HSP 1 e-value: 4.0E-6 bit: 52.0 Len: 114 Query Start:1 Query End:114 Subject Strand: NEGATIVE Subject Start: 30 Subject End: 143 aagagccgcttttaccgtgcaaaacctacgcttttggaatgcaaaacaataggttttgcaaagcgttgataattaagaggttgcgtgaaagctttgcttgtgaaaaatatttac....... aagagccgcttttaccctgtaaaagcggctcttttggaatgcgaaaacgtatgttttgtaatgtgctgatagttaataggttaagtgaaaggtgtgtttgtgaaaaatatttac....... Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAGAGCCGCUUUUACCGUGCAAAACCUACGCUUUUGGAAUGCAAAACAAUAGGUUUUGCAAAGCGUUGAUAAUUAAGAGGUUGCGUGAAAGCUUUGCUUGUGAAAAAUAUUUACGUUUUUA ..((((.((((((((...(((..((((((((((......((((((((.....))))))))))))))...........)))))))))))))))...))))(((((.....)))))....... (-31.50) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAAACGUAAAUAUUUUUCACAAGCAAAGCUUUCACGCAACCUCUUAAUUAUCAACGCUUUGCAAAACCUAUUGUUUUGCAUUCCAAAAGCGUAGGUUUUGCACGGUAAAAGCGGCUCUU .......................(((...((......)).................(((((((((((((((((.(((((........)))))))))))))))))......))))))))... (-26.60) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 894 50 1 64 15 pint:PI0200|5end_hypothetical_protein_191545..191775_POSITIVE 881 49 1 63 15 pint:PI0182|5end_hypothetical_protein_174093..174323_POSITIVE 842 60 11 129 80 pint:PI0841|5end_hypothetical_protein_775406..775636_POSITIVE 840 50 4 119 73 pint:PI0851|5end_hypothetical_protein_784310..784540_POSITIVE 814 50 4 75 29 pint:PI0755|5end_hypothetical_protein_686691..686921_POSITIVE 812 50 4 229 183 pint:PI0159|5end_hypothetical_protein_151273..151503_POSITIVE 812 50 4 141 95 pint:PI0157|5end_hypothetical_protein_151185..151415_POSITIVE 784 50 1 64 15 pint:PI1733|5end_hypothetical_protein_1652160..1652390_POSITIVE 730 60 11 90 41 pint:PI1129|5end_hypothetical_protein_1055377..1055607_POSITIVE 730 60 11 228 179 pint:PI0788|5end_3-methyladenine_DNA_glycosylase_(DNA-3-methyladenine_glycosylase_I)_726152..726382_POSITIVE 730 60 11 63 14 pint:PI0104|5end_hypothetical_protein_99105..99335_POSITIVE 730 60 11 151 102 pint:PI0055|5end_hypothetical_protein_54815..55045_POSITIVE 730 60 11 63 14 pint:PI0053|5end_hypothetical_protein_54727..54957_POSITIVE 723 50 1 64 15 pint:PI2131|5end_hypothetical_protein_2080678..2080908_POSITIVE 707 50 1 100 51 pint:PI2128|5end_hypothetical_protein_2076512..2076742_POSITIVE 702 60 11 59 10 pint:PI1905|5end_hypothetical_protein_1847628..1847858_POSITIVE 702 60 11 74 25 pint:PI0004|5end_hypothetical_protein_6199..6429_POSITIVE 696 60 11 90 41 pint:PI2144|5end_hypothetical_protein_2091954..2092184_POSITIVE 690 60 11 228 179 pint:PI2111|5end_conserved_hypothetical_protein_2062771..2063001_POSITIVE 679 58 11 100 53 pint:PI2153|5end_hypothetical_protein_2099392..2099622_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 730 60 11 144 95 pint:PI1141|3end_hypothetical_protein_1069713..1069863_POSITIVE 730 60 11 57 8 pint:PI0688|3end_hypothetical_protein_625750..625900_POSITIVE 730 60 11 51 2 pint:PI0669|3end_hypothetical_protein_611147..611297_POSITIVE 730 60 11 85 36 pint:PI0054|3end_hypothetical_protein_54829..54979_POSITIVE 705 69 24 46 1 pint:PI1391|3end_hypothetical_protein_1311694..1311844_POSITIVE 679 58 11 55 8 pint:PI0186|3end_hypothetical_protein_178003..178153_POSITIVE 650 58 11 142 95 pint:PI0759|3end_hypothetical_protein_693998..694148_POSITIVE 645 58 11 51 4 pint:PI1051|3end_hypothetical_protein_970228..970378_POSITIVE 608 33 1 151 119 pint:PI0182|3end_hypothetical_protein_174277..174427_POSITIVE 602 58 11 83 36 pint:PI0996|3end_hypothetical_protein_920660..920810_POSITIVE 597 70 29 47 6 pint:PI1813|3end_hypothetical_protein_1753086..1753236_POSITIVE 562 78 31 47 1 pint:PI2143|3end_DNA_mismatch_repair_protein_2091974..2092124_POSITIVE 532 48 2 147 97 pint:PI1356|3end_hypothetical_protein_1273340..1273490_POSITIVE 531 88 41 55 8 pint:PI2130|3end_DNA_polymerase_I_2080711..2080861_POSITIVE 475 27 1 151 125 pint:PI2011|3end_hypothetical_protein_1970730..1970880_POSITIVE 475 27 1 151 125 pint:PI0551|3end_hypothetical_protein_502683..502833_POSITIVE 475 27 1 151 125 pint:PI0200|3end_hypothetical_protein_191735..191885_POSITIVE 473 48 2 150 102 pint:PI0061|3end_hypothetical_protein_60690..60840_POSITIVE 446 27 1 151 125 pint:PI2131|3end_hypothetical_protein_2080868..2081018_POSITIVE 444 48 2 150 102 pint:PI1340|3end_hypothetical_protein_1256872..1257022_POSITIVE