Origin IGS: ttcggacacactacaacatattaggatcttatcccaaaacgaaaaagcctccgactctccctaacaaggtgagtcggaggctttttagtatccgttagctaaggc .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 gccttagctaacggatactaaaaagcctccgactcaccttgttagggagagtcggaggctttttcgttttgggataagatcctaatatgttgtagtgtgtccgaa Mask Tandem Repeat Region ================================================ ttcggacacactacaacatattaggatcttatcccaaaacgaaaaagcctccgactctccctaacaaggtgagtcggaggctttttagtatccgttagctaaggc Find is-nt database================================================ Query_seq: PG2053:PG2054|PG2053:PG2054:dithiobiotin synthetase:lipoprotein PG3:-><-:2151328..2151432 105 ttcggacacactacaacatattaggatcttatcccaaaacgaaaaagcctccgactctccctaacaaggtgagtcggaggctttttagtatccgttagctaaggc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG2053:PG2054|PG2053:PG2054:dithiobiotin synthetase:lipoprotein PG3:-><-:2151328..2151432 105 ttcggacacactacaacatattaggatcttatcccaaaacgaaaaagcctccgactctccctaacaaggtgagtcggaggctttttagtatccgttagctaaggc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG2053:PG2054|PG2053:PG2054:dithiobiotin synthetase:lipoprotein PG3:-><-:2151328..2151432 105 ttcggacacactacaacatattaggatcttatcccaaaacgaaaaagcctccgactctccctaacaaggtgagtcggaggctttttagtatccgttagctaaggc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ttcggacacactacaacatattaggatcttatcccaaaacgaaaaagcctccgactctccctaacaaggtgagtcggaggctttttagtatccgttagctaaggc Predict ORF larger than 30AA ================================================ ttcggacacactacaacatattaggatcttatcccaaaacgaaaaagcctccgactctccctaacaaggtgagtcggaggctttttagtatccgttagctaaggc 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================================================ ttcggacacactacaacatattaggatcttatcccaaaacgaaaaagcctccgactctccctaacaaggtgagtcggaggctttttagtatccgttagctaaggc Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 100 HP_score: -18.6 Tail_Score: -4.82154 Start: 47 End: 81 Full_Region: TCCCAAAACGAAAAA GCCTCCGACTCTCCCT AAC AAGGTGAGTCGGAGGC TTTTTAGTATCCGTT ..............................................GCCTCCGACTCTCCCTAACAAGGTGAGTCGGAGGC........................ Find igs database================================================ Query_seq: PG2053:PG2054|PG2053:PG2054:dithiobiotin synthetase:lipoprotein PG3:-><-:2151328..2151432 105 ttcggacacactacaacatattaggatcttatcccaaaacgaaaaagcctccgactctccctaacaaggtgagtcggaggctttttagtatccgttagctaaggc Intra-Species Hit: Count: 1 Min: 1 Max: 105 Len: 105 Subject: NC_002950_PG2053_PG2054|dithiobiotin synthetase:lipoprotein PG3|POSITIVE:NEGATIVE|[2151328,2151432]|105 HSP 1 e-value: 3.0E-53 bit: 208.0 Len: 105 Query Start:1 Query End:105 Subject Strand: POSITIVE Subject Start: 1 Subject End: 105 ttcggacacactacaacatattaggatcttatcccaaaacgaaaaagcctccgactctccctaacaaggtgagtcggaggctttttagtatccgttagctaaggc ttcggacacactacaacatattaggatcttatcccaaaacgaaaaagcctccgactctccctaacaaggtgagtcggaggctttttagtatccgttagctaaggc Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUCGGACACACUACAACAUAUUAGGAUCUUAUCCCAAAACGAAAAAGCCUCCGACUCUCCCUAACAAGGUGAGUCGGAGGCUUUUUAGUAUCCGUUAGCUAAGGC ..((((.((..............((((...)))).......((((((((((((((((.((.......)).)))))))))))))))).)).))))........... (-39.00) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GCCUUAGCUAACGGAUACUAAAAAGCCUCCGACUCACCUUGUUAGGGAGAGUCGGAGGCUUUUUCGUUUUGGGAUAAGAUCCUAAUAUGUUGUAGUGUGUCCGAA ...........(((((((.((((((((((((((((.(((.....))).))))))))))))))))(((.(((((((...))))))).))).......))))))).. (-48.60) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 403 86 43 163 109 NC_002950:PG0216|5end_hypothetical_protein_251956..252186_POSITIVE 333 90 45 112 66 NC_002950:PG1083|5end_hypothetical_protein_1151834..1152064_NEGATIVE 328 78 32 139 102 NC_002950:PG0896|5end_beta-galactosidase_957249..957479_POSITIVE 325 100 52 190 148 NC_002950:PG1719|5end_ABC_transporter,_ATP-binding_protein,_MsbA_family_1806749..1806979_POSITIVE 324 87 47 207 163 NC_002950:PG2075|5end_hypothetical_protein_2176466..2176696_NEGATIVE 323 81 41 67 18 NC_002950:PG0432|5end_NOL1/NOP2/sun_family_protein_470679..470909_NEGATIVE 319 80 33 151 93 NC_002950:PG2027|5end_hypothetical_protein_2125494..2125724_POSITIVE 311 85 46 75 30 NC_002950:PG1693|5end_HesA/MoeB/ThiF_family_protein_1777919..1778149_NEGATIVE 310 98 51 197 142 NC_002950:PG0636|5end_MATE_efflux_family_protein_689071..689301_NEGATIVE 301 76 34 184 125 NC_002950:PG0463|5end_folylpolyglutamate_synthase_507606..507836_NEGATIVE 300 86 46 45 5 NC_002950:PG2225|5end_hypothetical_protein_2339440..2339670_POSITIVE 299 96 51 183 137 NC_002950:PG0046|5end_phosphatidate_cytidylyltransferase_57200..57430_NEGATIVE 296 81 45 199 160 NC_002950:PG1498|5end_hypothetical_protein_1574656..1574886_POSITIVE 294 86 45 158 124 NC_002950:PG1544|5end_hypothetical_protein_1622592..1622822_POSITIVE 293 81 45 56 13 NC_002950:PG1621|5end_hypothetical_protein_1701431..1701661_NEGATIVE 292 69 23 155 91 NC_002950:PG2094|5end_hypothetical_protein_2197868..2198098_NEGATIVE 292 99 51 89 37 NC_002950:PG1441|5end_lysozyme-related_protein_1527525..1527755_NEGATIVE 291 90 43 208 141 NC_002950:PG0888|5end_hypothetical_protein_949910..950140_POSITIVE 284 89 46 80 23 NC_002950:PG0714|5end_copper_homeostasis_protein_CutC_768671..768901_NEGATIVE 283 88 46 191 144 NC_002950:PG1088|5end_acetyltransferase,_GNAT_family_1155426..1155656_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 584 86 42 49 5 NC_002950:PG2053|3end_dithiobiotin_synthetase_2151267..2151417_POSITIVE 370 82 43 151 101 NC_002950:PG0215|3end_hypothetical_protein_252028..252178_POSITIVE 333 90 45 64 18 NC_002950:PG1084|3end_thioredoxin_family_protein_1151882..1152032_NEGATIVE 323 81 41 63 14 NC_002950:PG0433|3end_tetrapyrrole_methylase_family_protein_470683..470833_NEGATIVE 319 80 33 122 64 NC_002950:PG2026|3end_phosphoglycerate_mutase_family_protein_2125545..2125695_POSITIVE 319 90 41 73 23 NC_002950:PG0387|3end_elongation_factor_Tu_421910..422060_POSITIVE 311 85 46 78 33 NC_002950:PG1694|3end_hypothetical_protein_1777916..1778066_NEGATIVE 306 82 44 75 37 NC_002950:PG0395|3end_DNA-directed_RNA_polymerase_beta'_subunit_433305..433455_POSITIVE 302 82 47 39 5 NC_002950:PG1326|3end_hemagglutinin,_putative_1405171..1405321_POSITIVE 299 80 32 143 100 NC_002950:PG1625|3end_hypothetical_protein_1708718..1708868_POSITIVE 296 81 45 98 59 NC_002950:PG1497|3end_DNA-binding_protein,_histone-like_family_1574635..1574785_POSITIVE 296 87 47 55 19 NC_002950:PG1327|3end_aminotransferase,_putative_1405270..1405420_NEGATIVE 294 86 45 73 39 NC_002950:PG1543|3end_thioesterase_family_protein_1622587..1622737_POSITIVE 293 80 34 76 25 NC_002950:PG1723|3end_ribosomal_protein_S20_1813403..1813553_POSITIVE 293 81 45 69 26 NC_002950:PG1622|3end_DNA_topoisomerase_IV_subunit_A_1701418..1701568_NEGATIVE 292 80 33 45 1 NC_002950:PG0452|3end_hypothetical_protein_495106..495256_POSITIVE 284 89 46 75 18 NC_002950:PG0715|3end_transporter_768676..768826_NEGATIVE 283 88 46 94 47 NC_002950:PG1089|3end_DNA-binding_response_regulator_RprY_1155523..1155673_NEGATIVE 280 100 51 91 35 NC_002950:PG0752|3end_uracil_phosphoribosyltransferase_798397..798547_POSITIVE 280 82 45 46 7 NC_002950:PG0082|3end_hypothetical_protein_97026..97176_POSITIVE