Origin IGS: gccagattttttattatacttttttaagggactttgagctcttgtactcttttcgataaagaatatcgctcaatctatgcttgcaacgcccgacaatgcgtagactttccactgctgaaataatctaatatactcatgatattaaagggagttcaatgaattactatttccgggttggggcagtagcattagaaataatttttgtggcataaacttccaaaaaatgagtactgtacgc .........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 gcgtacagtactcattttttggaagtttatgccacaaaaattatttctaatgctactgccccaacccggaaatagtaattcattgaactccctttaatatcatgagtatattagattatttcagcagtggaaagtctacgcattgtcgggcgttgcaagcatagattgagcgatattctttatcgaaaagagtacaagagctcaaagtcccttaaaaaagtataataaaaaatctggc Mask Tandem Repeat Region ================================================ gccagattttttattatacttttttaagggactttgagctcttgtactcttttcgataaagaatatcgctcaatctatgcttgcaacgcccgacaatgcgtagactttccactgctgaaataatctaatatactcatgatattaaagggagttcaatgaattactatttccgggttggggcagtagcattagaaataatttttgtggcataaacttccaaaaaatgagtactgtacgc Find is-nt database================================================ Query_seq: PG1026:PG1027|PG1026:PG1027:hypothetical protein:hypothetical protein:-><-:1089049..1089286 238 gccagattttttattatacttttttaagggactttgagctcttgtactcttttcgataaagaatatcgctcaatctatgcttgcaacgcccgacaatgcgtagactttccactgctgaaataatctaatatactcatgatattaaagggagttcaatgaattactatttccgggttggggcagtagcattagaaataatttttgtggcataaacttccaaaaaatgagtactgtacgc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG1026:PG1027|PG1026:PG1027:hypothetical protein:hypothetical protein:-><-:1089049..1089286 238 gccagattttttattatacttttttaagggactttgagctcttgtactcttttcgataaagaatatcgctcaatctatgcttgcaacgcccgacaatgcgtagactttccactgctgaaataatctaatatactcatgatattaaagggagttcaatgaattactatttccgggttggggcagtagcattagaaataatttttgtggcataaacttccaaaaaatgagtactgtacgc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG1026:PG1027|PG1026:PG1027:hypothetical protein:hypothetical protein:-><-:1089049..1089286 238 gccagattttttattatacttttttaagggactttgagctcttgtactcttttcgataaagaatatcgctcaatctatgcttgcaacgcccgacaatgcgtagactttccactgctgaaataatctaatatactcatgatattaaagggagttcaatgaattactatttccgggttggggcagtagcattagaaataatttttgtggcataaacttccaaaaaatgagtactgtacgc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gccagattttttattatacttttttaagggactttgagctcttgtactcttttcgataaagaatatcgctcaatctatgcttgcaacgcccgacaatgcgtagactttccactgctgaaataatctaatatactcatgatattaaagggagttcaatgaattactatttccgggttggggcagtagcattagaaataatttttgtggcataaacttccaaaaaatgagtactgtacgc Predict ORF larger than 30AA ================================================ Protein_Len: 36 Strand: - Start: 17 End: 124 ................ V K K L S K S S K Y E K R Y L I D S L R H K C R G V I R L S E V A S I M .................................................................................................................. gccagattttttattatacttttttaagggactttgagctcttgtactcttttcgataaagaatatcgctcaatctatgcttgcaacgcccgacaatgcgtagactttccactgctgaaataatctaatatactcatgatattaaagggagttcaatgaattactatttccgggttggggcagtagcattagaaataatttttgtggcataaacttccaaaaaatgagtactgtacgc 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================================================ gccagattttttattatacttttttaagggactttgagctcttgtactcttttcgataaagaatatcgctcaatctatgcttgcaacgcccgacaatgcgtagactttccactgctgaaataatctaatatactcatgatattaaagggagttcaatgaattactatttccgggttggggcagtagcattagaaataatttttgtggcataaacttccaaaaaatgagtactgtacgc Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PG1026:PG1027|PG1026:PG1027:hypothetical protein:hypothetical protein:-><-:1089049..1089286 238 gccagattttttattatacttttttaagggactttgagctcttgtactcttttcgataaagaatatcgctcaatctatgcttgcaacgcccgacaatgcgtagactttccactgctgaaataatctaatatactcatgatattaaagggagttcaatgaattactatttccgggttggggcagtagcattagaaataatttttgtggcataaacttccaaaaaatgagtactgtacgc Intra-Species Hit: Count: 1 Min: 1 Max: 238 Len: 238 Subject: NC_002950_PG1026_PG1027|hypothetical protein:hypothetical protein|POSITIVE:NEGATIVE|[1089049,1089286]|238 HSP 1 e-value: 1.0E-132 bit: 472.0 Len: 238 Query Start:1 Query End:238 Subject Strand: POSITIVE Subject Start: 1 Subject End: 238 gccagattttttattatacttttttaagggactttgagctcttgtactcttttcgataaagaatatcgctcaatctatgcttgcaacgcccgacaatgcgtagactttccactgctgaaataatctaatatactcatgatattaaagggagttcaatgaattactatttccgggttggggcagtagcattagaaataatttttgtggcataaacttccaaaaaatgagtactgtacgc gccagattttttattatacttttttaagggactttgagctcttgtactcttttcgataaagaatatcgctcaatctatgcttgcaacgcccgacaatgcgtagactttccactgctgaaataatctaatatactcatgatattaaagggagttcaatgaattactatttccgggttggggcagtagcattagaaataatttttgtggcataaacttccaaaaaatgagtactgtacgc Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GCCAGAUUUUUUAUUAUACUUUUUUAAGGGACUUUGAGCUCUUGUACUCUUUUCGAUAAAGAAUAUCGCUCAAUCUAUGCUUGCAACGCCCGACAAUGCGUAGACUUUCCACUGCUGAAAUAAUCUAAUAUACUCAUGAUAUUAAAGGGAGUUCAAUGAAUUACUAUUUCCGGGUUGGGGCAGUAGCAUUAGAAAUAAUUUUUGUGGCAUAAACUUCCAAAAAAUGAGUACUGUACGC ((((.(....(((((............((((..((((((....(((.(((((.....))))).))).))))))(((((((((((.......).))).)))))))..)))).((((((...(((((((((((.(....)))))))..((((((.............)))))).)))))...)))))).......)))))....).)))).............................. (-44.82) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GCGUACAGUACUCAUUUUUUGGAAGUUUAUGCCACAAAAAUUAUUUCUAAUGCUACUGCCCCAACCCGGAAAUAGUAAUUCAUUGAACUCCCUUUAAUAUCAUGAGUAUAUUAGAUUAUUUCAGCAGUGGAAAGUCUACGCAUUGUCGGGCGUUGCAAGCAUAGAUUGAGCGAUAUUCUUUAUCGAAAAGAGUACAAGAGCUCAAAGUCCCUUAAAAAAGUAUAAUAAAAAAUCUGGC .......(((((..((((..((..((((((((.......((((....))))((.((.((((.......((((((((.......((.((((.............)))).))....)))))))).((.((((.....))))))......)))))).))..))))))))(((((..((((((((.....)))))))).....))))).....))..)))).)))))............... (-46.52) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 409 107 61 60 13 NC_002950:PG1061|5end_ISPg6,_transposase_1129818..1130048_NEGATIVE 363 183 146 222 183 NC_002950:PG0638|5end_tetraacyldisaccharide_4'-kinase_691183..691413_NEGATIVE 334 100 53 165 119 NC_002950:PG2061|5end_dihydrofolate_reductase_2158422..2158652_POSITIVE 319 120 80 61 18 NC_002950:PG0661|5end_hypothetical_protein_709853..710083_NEGATIVE 319 120 80 219 176 NC_002950:PG0660|5end_nitroreductase_family_protein_709695..709925_NEGATIVE 313 110 66 216 162 NC_002950:PG2179|5end_NADH-ubiquinone_oxidoreductase_2287806..2288036_NEGATIVE 294 189 146 177 131 NC_002950:PG1102|5end_hypothetical_protein_1173637..1173867_NEGATIVE 291 117 76 183 137 NC_002950:PG1057|5end_hypothetical_protein_1123419..1123649_POSITIVE 291 103 63 47 8 NC_002950:PG0896|5end_beta-galactosidase_957249..957479_POSITIVE 290 117 78 45 9 NC_002950:PG1522|5end_mandelate_racemase/muconate_lactonizing_enzyme_family_protein_1600170..1600400_NEGATIVE 289 118 83 123 93 NC_002950:PG1154|5end_hypothetical_protein_1235825..1236055_NEGATIVE 286 209 164 191 150 NC_002950:PG1137|5end_porS_protein_1219597..1219827_NEGATIVE 286 219 171 122 74 NC_002950:PG0926|5end_hypothetical_protein_984634..984864_NEGATIVE 284 115 78 172 125 NC_002950:PG0283|5end_efflux_transporter,_MFP_component,_RND_family_318245..318475_NEGATIVE 282 110 63 159 111 NC_002950:PG1966|5end_hypothetical_protein_2056924..2057154_NEGATIVE 282 117 78 46 6 NC_002950:PG0960|5end_tRNA_(guanine-N(7)-)-methyltransferase_1021895..1022125_NEGATIVE 281 104 64 62 26 NC_002950:PG0789|5end_hypothetical_protein_841418..841648_NEGATIVE 278 220 171 169 114 NC_002950:PG1564|5end_hypothetical_protein_1644536..1644766_NEGATIVE 277 181 144 74 31 NC_002950:PG0785|5end_tonB_protein,_putative_837592..837822_NEGATIVE 276 117 73 95 60 NC_002950:PG0425|5end_esterase,_putative_463989..464219_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 334 100 53 119 73 NC_002950:PG2060|3end_thymidylate_synthase_2158456..2158606_POSITIVE 328 118 83 147 107 NC_002950:PG0800|3end_hypothetical_protein_854719..854869_NEGATIVE 308 119 73 126 83 NC_002950:PG0068|3end_hypothetical_protein_82079..82229_POSITIVE 304 109 64 119 85 NC_002950:PG1866|3end_hypothetical_protein_1964736..1964886_POSITIVE 296 110 63 147 98 NC_002950:PG2062|3end_histidyl-tRNA_synthetase_2160415..2160565_POSITIVE 290 117 78 45 9 NC_002950:PG1523|3end_naphthoate_synthase_1600170..1600320_NEGATIVE 289 118 75 44 1 NC_002950:PG1247|3end_3-dehydroquinate_synthase_1325585..1325735_POSITIVE 288 102 68 119 89 NC_002950:PG1743|3end_2-dehydro-3-deoxyphosphooctonate_aldolase_1827530..1827680_NEGATIVE 286 219 171 122 74 NC_002950:PG0927|3end_conserved_hypothetical_protein_TIGR00150_984634..984784_NEGATIVE 283 188 145 128 81 NC_002950:PG1375|3end_hypothetical_protein_1456743..1456893_POSITIVE 281 104 64 81 45 NC_002950:PG0790|3end_GTP-binding_protein_Obg_841399..841549_NEGATIVE 278 220 171 84 29 NC_002950:PG1565|3end_3-deoxy-D-manno-octulosonic-acid_transferase,_putative_1644621..1644771_NEGATIVE 277 181 144 96 53 NC_002950:PG0786|3end_hypothetical_protein_837570..837720_NEGATIVE 276 99 52 123 80 NC_002950:PG0652|3end_hypothetical_protein_703899..704049_NEGATIVE 272 80 36 144 82 NC_002950:PG1135|3end_bacterial_sugar_transferase_1216554..1216704_POSITIVE 271 110 64 136 101 NC_002950:PG1470|3end_hypothetical_protein_1548431..1548581_POSITIVE 271 90 46 82 13 NC_002950:PG1112|3end_hypothetical_protein_1185571..1185721_POSITIVE 271 117 72 136 84 NC_002950:PG0514|3end_translocase_552929..553079_NEGATIVE 270 120 78 38 1 NC_002950:PG0959|3end_ATP-binding_protein,_Mrp/Nbp35_family_1020023..1020173_NEGATIVE 269 170 133 125 82 NC_002950:PG1515|3end_ribulose_bisphosphate_carboxylase-related_protein_1591870..1592020_POSITIVE