Origin IGS: ctctccggcgagggtccttctgccgatcagaccgcaaaccgcacgttgtgggggagtaattctatgcctgatccgagaaggatgtacctctcttcctgcatgataat .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 attatcatgcaggaagagaggtacatccttctcggatcaggcatagaattactcccccacaacgtgcggtttgcggtctgatcggcagaaggaccctcgccggagag Mask Tandem Repeat Region ================================================ ctctccggcgagggtccttctgccgatcagaccgcaaaccgcacgttgtgggggagtaattctatgcctgatccgagaaggatgtacctctcttcctgcatgataat Find is-nt database================================================ Query_seq: PG1537:PG1538|PG1537:PG1538:hypothetical protein:undecaprenol kinase, putative:->->:1617664..1617770 107 ctctccggcgagggtccttctgccgatcagaccgcaaaccgcacgttgtgggggagtaattctatgcctgatccgagaaggatgtacctctcttcctgcatgataat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG1537:PG1538|PG1537:PG1538:hypothetical protein:undecaprenol kinase, putative:->->:1617664..1617770 107 ctctccggcgagggtccttctgccgatcagaccgcaaaccgcacgttgtgggggagtaattctatgcctgatccgagaaggatgtacctctcttcctgcatgataat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG1537:PG1538|PG1537:PG1538:hypothetical protein:undecaprenol kinase, putative:->->:1617664..1617770 107 ctctccggcgagggtccttctgccgatcagaccgcaaaccgcacgttgtgggggagtaattctatgcctgatccgagaaggatgtacctctcttcctgcatgataat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ctctccggcgagggtccttctgccgatcagaccgcaaaccgcacgttgtgggggagtaattctatgcctgatccgagaaggatgtacctctcttcctgcatgataat Predict ORF larger than 30AA ================================================ ctctccggcgagggtccttctgccgatcagaccgcaaaccgcacgttgtgggggagtaattctatgcctgatccgagaaggatgtacctctcttcctgcatgataat 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================================================ ctctccggcgagggtccttctgccgatcagaccgcaaaccgcacgttgtgggggagtaattctatgcctgatccgagaaggatgtacctctcttcctgcatgataat Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PG1537:PG1538|PG1537:PG1538:hypothetical protein:undecaprenol kinase, putative:->->:1617664..1617770 107 ctctccggcgagggtccttctgccgatcagaccgcaaaccgcacgttgtgggggagtaattctatgcctgatccgagaaggatgtacctctcttcctgcatgataat Intra-Species Hit: Count: 1 Min: 1 Max: 107 Len: 107 Subject: NC_002950_PG1537_PG1538|hypothetical protein:undecaprenol kinase, putative|POSITIVE:POSITIVE|[1617664,1617770]|107 HSP 1 e-value: 2.0E-54 bit: 212.0 Len: 107 Query Start:1 Query End:107 Subject Strand: POSITIVE Subject Start: 1 Subject End: 107 ctctccggcgagggtccttctgccgatcagaccgcaaaccgcacgttgtgggggagtaattctatgcctgatccgagaaggatgtacctctcttcctgcatgataat ctctccggcgagggtccttctgccgatcagaccgcaaaccgcacgttgtgggggagtaattctatgcctgatccgagaaggatgtacctctcttcctgcatgataat Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CUCUCCGGCGAGGGUCCUUCUGCCGAUCAGACCGCAAACCGCACGUUGUGGGGGAGUAAUUCUAUGCCUGAUCCGAGAAGGAUGUACCUCUCUUCCUGCAUGAUAAU ......((.((((((((((((.(.((((((...(((..((((.....)))).(((....)))..))))))))).)))))))))...)))).)).............. (-33.50) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUUAUCAUGCAGGAAGAGAGGUACAUCCUUCUCGGAUCAGGCAUAGAAUUACUCCCCCACAACGUGCGGUUUGCGGUCUGAUCGGCAGAAGGACCCUCGCCGGAGAG ...........((....((((....((((((((.((((((((...((((..(.............)..))))...)))))))).).))))))).)))).))...... (-34.42) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 448 46 1 69 9 NC_002950:PG1289|5end_GDP-fucose_synthetase_1367041..1367271_POSITIVE 430 56 11 228 174 NC_002950:PG0221|5end_hypothetical_protein_255834..256064_NEGATIVE 411 50 1 149 80 NC_002950:PG1027|5end_hypothetical_protein_1089439..1089669_NEGATIVE 408 70 22 48 8 NC_002950:PG1946|5end_ABC_3_transporter_family_protein_2032133..2032363_POSITIVE 405 48 3 221 162 NC_002950:PG1594|5end_ComEC/Rec2-related_protein_1673587..1673817_NEGATIVE 404 50 5 109 67 NC_002950:PG0326|5end_hypothetical_protein_360974..361204_NEGATIVE 400 48 1 229 172 NC_002950:PG1498|5end_hypothetical_protein_1574656..1574886_POSITIVE 399 50 5 219 172 NC_002950:PG1481|5end_conjugative_transposon_protein_TraG_1558447..1558677_NEGATIVE 398 48 6 60 15 NC_002950:PG1954|5end_NAD_dependent_epimerase/reductase-related_protein_2044513..2044743_POSITIVE 395 69 22 59 12 NC_002950:PG0090|5end_Dps_family_protein_105524..105754_POSITIVE 386 50 2 168 113 NC_002950:PG0203|5end_hypothetical_protein_240211..240441_NEGATIVE 386 50 1 61 5 NC_002950:PG0132|5end_hypothetical_protein_152879..153109_POSITIVE 379 56 11 109 54 NC_002950:PG1095|5end_RNA_methyltransferase,_TrmA_family_1160225..1160455_POSITIVE 374 41 1 227 170 NC_002950:PG2048|5end_hypothetical_protein_2148514..2148744_NEGATIVE 372 48 5 104 48 NC_002950:PG1576|5end_L-aspartate_oxidase_1653016..1653246_POSITIVE 363 56 12 118 69 NC_002950:PG1441|5end_lysozyme-related_protein_1527525..1527755_NEGATIVE 358 87 44 216 156 NC_002950:PG0725|5end_hydrolase,_haloacid_dehalogenase-like_family_777260..777490_POSITIVE 357 50 1 170 108 NC_002950:PG2087|5end_hypothetical_protein_2186990..2187220_POSITIVE 356 50 2 43 1 NC_002950:PG1774|5end_transcription-repair_coupling_factor_1864547..1864777_NEGATIVE 356 90 41 146 88 NC_002950:PG0938|5end_calcium-transporting_ATPase_1000385..1000615_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 448 46 1 76 16 NC_002950:PG1288|3end_GDP-mannose_4,6-dehydratase_1367128..1367278_POSITIVE 430 56 11 149 95 NC_002950:PG0222|3end_DNA-binding_protein,_histone-like_family_255913..256063_NEGATIVE 419 87 42 64 20 NC_002950:PG1142|3end_exopolysaccharide_synthesis-related_protein_1224571..1224721_NEGATIVE 410 55 11 138 93 NC_002950:PG1497|3end_DNA-binding_protein,_histone-like_family_1574635..1574785_POSITIVE 408 70 22 55 15 NC_002950:PG1945|3end_hypothetical_protein_2032220..2032370_POSITIVE 398 48 6 56 11 NC_002950:PG1953|3end_YitT_family_protein_2044589..2044739_POSITIVE 386 50 2 117 62 NC_002950:PG0204|3end_hypothetical_protein_240262..240412_NEGATIVE 376 48 4 115 62 NC_002950:PG0443|3end_hemagglutinin-related_protein_483147..483297_POSITIVE 374 49 2 91 30 NC_002950:PG1391|3end_hypothetical_protein_1472961..1473111_POSITIVE 365 60 16 76 33 NC_002950:PG0915|3end_hypothetical_protein_977057..977207_POSITIVE 359 55 11 142 83 NC_002950:PG2091|3end_dihydroneopterin_aldolase_2191610..2191760_POSITIVE 358 87 44 131 71 NC_002950:PG0724|3end_prolyl_oligopeptidase_family_protein_777255..777405_POSITIVE 356 90 41 121 63 NC_002950:PG1244|3end_ISPg1,_transposase_1320699..1320849_POSITIVE 356 90 41 121 63 NC_002950:PG0549|3end_ISPg1,_transposase_605987..606137_NEGATIVE 356 90 41 121 63 NC_002950:PG0460|3end_ISPg1,_transposase_503102..503252_POSITIVE 355 47 8 132 86 NC_002950:PG1975|3end_hemagglutinin_protein_HagC_2064350..2064500_POSITIVE 354 48 2 135 72 NC_002950:PG0566|3end_DNA-binding_protein,_histone-like_family_622935..623085_NEGATIVE 353 50 3 144 94 NC_002950:PG1903|3end_hypothetical_protein_2002230..2002380_NEGATIVE 353 79 38 54 16 NC_002950:PG1009|3end_hypothetical_protein_1067641..1067791_NEGATIVE 352 48 5 148 94 NC_002950:PG0361|3end_hypothetical_protein_395481..395631_POSITIVE