Origin IGS: ccccagcataggactaaccggtatgtgtgtaaacttatatgaatcccgctcaccccaactgtcaacttttttcggtacacaacggtggagactgacagctggggtacttttttattcattgtaagggctgtttatcgcttttgaaatgccctcaaggttagtgtttattggccttgtaggtatattacagtctgcaatttgac .........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 gtcaaattgcagactgtaatatacctacaaggccaataaacactaaccttgagggcatttcaaaagcgataaacagcccttacaatgaataaaaaagtaccccagctgtcagtctccaccgttgtgtaccgaaaaaagttgacagttggggtgagcgggattcatataagtttacacacataccggttagtcctatgctgggg Mask Tandem Repeat Region ================================================ ccccagcataggactaaccggtatgtgtgtaaacttatatgaatcccgctcaccccaactgtcaacttttttcggtacacaacggtggagactgacagctggggtacttttttattcattgtaagggctgtttatcgcttttgaaatgccctcaaggttagtgtttattggccttgtaggtatattacagtctgcaatttgac Find is-nt database================================================ Query_seq: PG0274:PG0275|PG0274:PG0275:hypothetical protein:thioredoxin family protein:-><-:306842..307044 203 ccccagcataggactaaccggtatgtgtgtaaacttatatgaatcccgctcaccccaactgtcaacttttttcggtacacaacggtggagactgacagctggggtacttttttattcattgtaagggctgtttatcgcttttgaaatgccctcaaggttagtgtttattggccttgtaggtatattacagtctgcaatttgac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG0274:PG0275|PG0274:PG0275:hypothetical protein:thioredoxin family protein:-><-:306842..307044 203 ccccagcataggactaaccggtatgtgtgtaaacttatatgaatcccgctcaccccaactgtcaacttttttcggtacacaacggtggagactgacagctggggtacttttttattcattgtaagggctgtttatcgcttttgaaatgccctcaaggttagtgtttattggccttgtaggtatattacagtctgcaatttgac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG0274:PG0275|PG0274:PG0275:hypothetical protein:thioredoxin family protein:-><-:306842..307044 203 ccccagcataggactaaccggtatgtgtgtaaacttatatgaatcccgctcaccccaactgtcaacttttttcggtacacaacggtggagactgacagctggggtacttttttattcattgtaagggctgtttatcgcttttgaaatgccctcaaggttagtgtttattggccttgtaggtatattacagtctgcaatttgac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ccccagcataggactaaccggtatgtgtgtaaacttatatgaatcccgctcaccccaactgtcaacttttttcggtacacaacggtggagactgacagctggggtacttttttattcattgtaagggctgtttatcgcttttgaaatgccctcaaggttagtgtttattggccttgtaggtatattacagtctgcaatttgac Predict ORF larger than 30AA ================================================ Protein_Len: 38 Strand: + Start: 8 End: 121 ....... M G L T G M C V N L Y E S R S P Q L S T F F G T Q R W R L T A G V L F Y S L .................................................................................. Protein_Len: 33 Strand: + Start: 43 End: 141 .......................................... M P L T P T V N F F R Y T T V E T D S W G T F L F I V R A V Y R F .............................................................. Protein_Len: 39 Strand: - Start: 3 End: 119 .. W C L V L R Y T H L S I H I G S V G V T L K K R Y V V T S V S L Q P V K K N M .................................................................................... ccccagcataggactaaccggtatgtgtgtaaacttatatgaatcccgctcaccccaactgtcaacttttttcggtacacaacggtggagactgacagctggggtacttttttattcattgtaagggctgtttatcgcttttgaaatgccctcaaggttagtgtttattggccttgtaggtatattacagtctgcaatttgac Predict Promoter with matrix: RpoD-15 score > 80================================================ Predict Promoter with matrix: RpoD-16 score > 80================================================ Predict Promoter with matrix: RpoD-17 score > 80================================================ PromScan Matrix: RpoD-17 Strand: - Score: 81 Start: 5 End: 34 ....GTTTACACACATACCGGTTAGTCCTATGCT......................................................................................................................................................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ ccccagcataggactaaccggtatgtgtgtaaacttatatgaatcccgctcaccccaactgtcaacttttttcggtacacaacggtggagactgacagctggggtacttttttattcattgtaagggctgtttatcgcttttgaaatgccctcaaggttagtgtttattggccttgtaggtatattacagtctgcaatttgac Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PG0274:PG0275|PG0274:PG0275:hypothetical protein:thioredoxin family protein:-><-:306842..307044 203 ccccagcataggactaaccggtatgtgtgtaaacttatatgaatcccgctcaccccaactgtcaacttttttcggtacacaacggtggagactgacagctggggtacttttttattcattgtaagggctgtttatcgcttttgaaatgccctcaaggttagtgtttattggccttgtaggtatattacagtctgcaatttgac Intra-Species Hit: Count: 1 Min: 1 Max: 203 Len: 203 Subject: NC_002950_PG0274_PG0275|hypothetical protein:thioredoxin family protein|POSITIVE:NEGATIVE|[306842,307044]|203 HSP 1 e-value: 1.0E-111 bit: 402.0 Len: 203 Query Start:1 Query End:203 Subject Strand: POSITIVE Subject Start: 1 Subject End: 203 ccccagcataggactaaccggtatgtgtgtaaacttatatgaatcccgctcaccccaactgtcaacttttttcggtacacaacggtggagactgacagctggggtacttttttattcattgtaagggctgtttatcgcttttgaaatgccctcaaggttagtgtttattggccttgtaggtatattacagtctgcaatttgac ccccagcataggactaaccggtatgtgtgtaaacttatatgaatcccgctcaccccaactgtcaacttttttcggtacacaacggtggagactgacagctggggtacttttttattcattgtaagggctgtttatcgcttttgaaatgccctcaaggttagtgtttattggccttgtaggtatattacagtctgcaatttgac Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CCCCAGCAUAGGACUAACCGGUAUGUGUGUAAACUUAUAUGAAUCCCGCUCACCCCAACUGUCAACUUUUUUCGGUACACAACGGUGGAGACUGACAGCUGGGGUACUUUUUUAUUCAUUGUAAGGGCUGUUUAUCGCUUUUGAAAUGCCCUCAAGGUUAGUGUUUAUUGGCCUUGUAGGUAUAUUACAGUCUGCAAUUUGAC .....(((...((((...(((((.....((...(((((((((((.......((((((.((((((..(((..(((........)))..)))..)))))).))))))........))))).)))))).))....)))))....(((.(((((..((((((((((....))))))))))..))))).))).)))))))........ (-59.36) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GUCAAAUUGCAGACUGUAAUAUACCUACAAGGCCAAUAAACACUAACCUUGAGGGCAUUUCAAAAGCGAUAAACAGCCCUUACAAUGAAUAAAAAAGUACCCCAGCUGUCAGUCUCCACCGUUGUGUACCGAAAAAAGUUGACAGUUGGGGUGAGCGGGAUUCAUAUAAGUUUACACACAUACCGGUUAGUCCUAUGCUGGGG .....(((((.....)))))...(((((((((.........(((((((.(((((((...((......))......)))))))..((((((.......(((((((((((((((.((......(((.....)))....)))))))))))))))))......))))))...................)))))))))).)).)))). (-56.52) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 573 85 47 111 73 NC_002950:PG0274|5end_hypothetical_protein_306333..306563_POSITIVE 543 87 43 120 81 NC_002950:PG2129|5end_ISPg5,_transposase_Orf1_2235248..2235478_NEGATIVE 541 88 43 127 81 NC_002950:PG0009|5end_ISPg5_transposase_Orf1_8466..8696_NEGATIVE 522 84 43 122 81 NC_002950:PG2058|5end_ISPg5,_transposase_Orf1_2156390..2156620_NEGATIVE 521 85 43 118 81 NC_002950:PG1709|5end_ISPg5,_transposase_Orf1_1794914..1795144_POSITIVE 516 90 43 123 75 NC_002950:PG0590|5end_ISPg5,_transposase_Orf1_648035..648265_POSITIVE 500 80 40 113 78 NC_002950:PG1645|5end_ISPg5,_transposase_Orf1_1726062..1726292_NEGATIVE 500 80 40 113 78 NC_002950:PG0427|5end_ISPg5,_transposase_Orf1_465541..465771_NEGATIVE 500 80 40 113 78 NC_002950:PG0040|5end_ISPg5_transposase_Orf1_47934..48164_POSITIVE 462 80 40 106 72 NC_002950:PG1419|5end_ISPg5,_transposase_Orf1_1504997..1505227_POSITIVE 462 80 40 106 72 NC_002950:PG0942|5end_ISPg5,_transposase_Orf1_1002063..1002293_POSITIVE 355 130 82 222 163 NC_002950:PG0356|5end_hypothetical_protein_390611..390841_POSITIVE 343 118 71 200 151 NC_002950:PG0045|5end_heat_shock_protein_90_54059..54289_POSITIVE 328 117 71 119 62 NC_002950:PG1234|5end_hypothetical_protein_1310112..1310342_POSITIVE 327 88 46 172 129 NC_002950:PG1999|5end_hypothetical_protein_2088821..2089051_NEGATIVE 324 139 91 47 2 NC_002950:PG1475|5end_conjugative_transposon_protein_TraN_1551835..1552065_NEGATIVE 315 128 83 184 138 NC_002950:PG1799|5end_hypothetical_protein_1894499..1894729_POSITIVE 315 88 41 47 3 NC_002950:PG1426|5end_hypothetical_protein_1511310..1511540_NEGATIVE 314 137 92 71 26 NC_002950:PG2190|5end_cell-division_ATP-binding_protein_2297909..2298139_NEGATIVE 310 110 71 217 165 NC_002950:PG1812|5end_2-oxoglutarate_ferredoxin_oxidoreductase_1908107..1908337_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 573 85 47 68 30 NC_002950:PG0273|3end_4'-phosphopantetheinyl_transferase_family_protein_306370..306520_POSITIVE 327 88 46 151 108 NC_002950:PG2000|3end_signal_peptidase-related_protein_2088842..2088992_NEGATIVE 307 170 124 57 9 NC_002950:PG1256|3end_ribonuclease,_Rne/Rng_family_1332748..1332898_NEGATIVE 305 126 85 67 17 NC_002950:PG1006|3end_hypothetical_protein_1063794..1063944_NEGATIVE 303 111 73 61 15 NC_002950:PG0399|3end_lipoprotein,_putative_435707..435857_NEGATIVE 300 180 135 150 101 NC_002950:PG0734|3end_nitroreductase_family_protein_784404..784554_POSITIVE 299 108 66 140 99 NC_002950:PG1401|3end_beta-eliminating_lyase_1483399..1483549_NEGATIVE 298 104 61 127 86 NC_002950:PG0979|3end_hypothetical_protein_1040990..1041140_POSITIVE 297 130 87 63 10 NC_002950:PG0093|3end_HlyD_family_secretion_protein_108643..108793_NEGATIVE 294 106 74 42 6 NC_002950:PG2188|3end_diaminopimelate_decarboxylase_2294633..2294783_NEGATIVE 294 130 83 112 51 NC_002950:PG2114|3end_hypothetical_protein_2223982..2224132_NEGATIVE 294 104 62 64 23 NC_002950:PG1391|3end_hypothetical_protein_1472961..1473111_POSITIVE 293 130 83 49 3 NC_002950:PG1544|3end_hypothetical_protein_1623442..1623592_POSITIVE 291 126 83 151 105 NC_002950:PG0504|3end_lipoyl_synthase_545162..545312_POSITIVE 288 108 66 133 76 NC_002950:PG1346|3end_glycosyl_transferase,_group_1_family_protein_1428059..1428209_POSITIVE 284 118 71 98 41 NC_002950:PG0977|3end_ubiquinone/menaquinone_biosynthesis_methyltransferase_1040116..1040266_POSITIVE 281 129 84 110 60 NC_002950:PG2087|3end_hypothetical_protein_2187543..2187693_POSITIVE 281 128 83 60 7 NC_002950:PG0811|3end_Holliday_junction_DNA_helicase_motor_protein_872601..872751_NEGATIVE 280 80 36 149 97 NC_002950:PG1730|3end_O-methyltransferase_family_protein_1818927..1819077_NEGATIVE 280 88 41 71 28 NC_002950:PG1622|3end_DNA_topoisomerase_IV_subunit_A_1701418..1701568_NEGATIVE