Origin IGS: taaaagcgggaataatagataaaatactaccgtttccccaaatgggataaccgatagtagaaagaaatcataatgaacaatgctcctgtcagcacgaacgaaagttatgtgccgacaggagccatttaaagtattattaagaatgtgggtctgatattcatgaatagtttagaacgttttagtagaagcagaaggcctttctctgcttaactatccaataaatcctta .........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 taaggatttattggatagttaagcagagaaaggccttctgcttctactaaaacgttctaaactattcatgaatatcagacccacattcttaataatactttaaatggctcctgtcggcacataactttcgttcgtgctgacaggagcattgttcattatgatttctttctactatcggttatcccatttggggaaacggtagtattttatctattattcccgctttta Mask Tandem Repeat Region ================================================ taaaagcgggaataatagataaaatactaccgtttccccaaatgggataaccgatagtagaaagaaatcataatgaacaatgctcctgtcagcacgaacgaaagttatgtgccgacaggagccatttaaagtattattaagaatgtgggtctgatattcatgaatagtttagaacgttttagtagaagcagaaggcctttctctgcttaactatccaataaatcctta Find is-nt database================================================ Query_seq: PI0077:PI0078|PI0077:PI0078:hypothetical protein:hypothetical protein:->->:77680..77907 228 taaaagcgggaataatagataaaatactaccgtttccccaaatgggataaccgatagtagaaagaaatcataatgaacaatgctcctgtcagcacgaacgaaagttatgtgccgacaggagccatttaaagtattattaagaatgtgggtctgatattcatgaatagtttagaacgttttagtagaagcagaaggcctttctctgcttaactatccaataaatcctta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0077:PI0078|PI0077:PI0078:hypothetical protein:hypothetical protein:->->:77680..77907 228 taaaagcgggaataatagataaaatactaccgtttccccaaatgggataaccgatagtagaaagaaatcataatgaacaatgctcctgtcagcacgaacgaaagttatgtgccgacaggagccatttaaagtattattaagaatgtgggtctgatattcatgaatagtttagaacgttttagtagaagcagaaggcctttctctgcttaactatccaataaatcctta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0077:PI0078|PI0077:PI0078:hypothetical protein:hypothetical protein:->->:77680..77907 228 taaaagcgggaataatagataaaatactaccgtttccccaaatgggataaccgatagtagaaagaaatcataatgaacaatgctcctgtcagcacgaacgaaagttatgtgccgacaggagccatttaaagtattattaagaatgtgggtctgatattcatgaatagtttagaacgttttagtagaagcagaaggcctttctctgcttaactatccaataaatcctta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taaaagcgggaataatagataaaatactaccgtttccccaaatgggataaccgatagtagaaagaaatcataatgaacaatgctcctgtcagcacgaacgaaagttatgtgccgacaggagccatttaaagtattattaagaatgtgggtctgatattcatgaatagtttagaacgttttagtagaagcagaaggcctttctctgcttaactatccaataaatcctta Predict ORF larger than 30AA ================================================ Protein_Len: 55 Strand: - Start: 1 End: 165 L L P F L L Y F V V T E G F P I V S L L F F D Y H V I S R D A R V F T I H R C S G N L T N N L I H T Q Y E H M ............................................................... taaaagcgggaataatagataaaatactaccgtttccccaaatgggataaccgatagtagaaagaaatcataatgaacaatgctcctgtcagcacgaacgaaagttatgtgccgacaggagccatttaaagtattattaagaatgtgggtctgatattcatgaatagtttagaacgttttagtagaagcagaaggcctttctctgcttaactatccaataaatcctta 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================================================ taaaagcgggaataatagataaaatactaccgtttccccaaatgggataaccgatagtagaaagaaatcataatgaacaatgctcctgtcagcacgaacgaaagttatgtgccgacaggagccatttaaagtattattaagaatgtgggtctgatattcatgaatagtttagaacgttttagtagaagcagaaggcctttctctgcttaactatccaataaatcctta Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 74 HP_score: -5.1 Tail_Score: -4.73633 Start: 25 End: 59 Full_Region: attatgatttctttc tactatcggttatccc attt ggggaaacggtagta ttttatctattattc ........................tactatcggttatcccatttggggaaacggtagta......................................................................................................................................................................... TransTerm Strand: + Conf: 86 HP_score: -10.5 Tail_Score: -3.69332 Start: 81 End: 124 Full_Region: AATCATAATGAACAA TGCTCCTGTCAGCACGAAC GAAA GTTATGTGCCGACAGGAGCCA TTTAAAGTATTATTA ................................................................................TGCTCCTGTCAGCACGAACGAAAGTTATGTGCCGACAGGAGCCA........................................................................................................ TransTerm Strand: - Conf: 93 HP_score: -12.1 Tail_Score: -3.87584 Start: 81 End: 123 Full_Region: aataatactttaaat ggctcctgtcggcacataac tttc gttcgtgctgacaggagca ttgttcattatgatt ................................................................................ggctcctgtcggcacataactttcgttcgtgctgacaggagca......................................................................................................... TransTerm Strand: - Conf: 100 HP_score: -15.6 Tail_Score: -2.91466 Start: 82 End: 122 Full_Region: ataatactttaaatg gctcctgtcggcacataac tttc gttcgtgctgacaggagc attgttcattatgat .................................................................................gctcctgtcggcacataactttcgttcgtgctgacaggagc.......................................................................................................... Find igs database================================================ Query_seq: PI0077:PI0078|PI0077:PI0078:hypothetical protein:hypothetical protein:->->:77680..77907 228 taaaagcgggaataatagataaaatactaccgtttccccaaatgggataaccgatagtagaaagaaatcataatgaacaatgctcctgtcagcacgaacgaaagttatgtgccgacaggagccatttaaagtattattaagaatgtgggtctgatattcatgaatagtttagaacgttttagtagaagcagaaggcctttctctgcttaactatccaataaatcctta Intra-Species Hit: Count: 1 Min: 1 Max: 228 Len: 228 Subject: pint_PI0077_PI0078|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[77680,77907]|228 HSP 1 e-value: 1.0E-126 bit: 452.0 Len: 228 Query Start:1 Query End:228 Subject Strand: POSITIVE Subject Start: 1 Subject End: 228 taaaagcgggaataatagataaaatactaccgtttccccaaatgggataaccgatagtagaaagaaatcataatgaacaatgctcctgtcagcacgaacgaaagttatgtgccgacaggagccatttaaagtattattaagaatgtgggtctgatattcatgaatagtttagaacgttttagtagaagcagaaggcctttctctgcttaactatccaataaatcctta taaaagcgggaataatagataaaatactaccgtttccccaaatgggataaccgatagtagaaagaaatcataatgaacaatgctcctgtcagcacgaacgaaagttatgtgccgacaggagccatttaaagtattattaagaatgtgggtctgatattcatgaatagtttagaacgttttagtagaagcagaaggcctttctctgcttaactatccaataaatcctta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAAGCGGGAAUAAUAGAUAAAAUACUACCGUUUCCCCAAAUGGGAUAACCGAUAGUAGAAAGAAAUCAUAAUGAACAAUGCUCCUGUCAGCACGAACGAAAGUUAUGUGCCGACAGGAGCCAUUUAAAGUAUUAUUAAGAAUGUGGGUCUGAUAUUCAUGAAUAGUUUAGAACGUUUUAGUAGAAGCAGAAGGCCUUUCUCUGCUUAACUAUCCAAUAAAUCCUUA .....(.(((((...(((........)))....))))))....(((((....((((((................((((...(((((((((.((((((((....))).))))).)))))))))..((((((.((((.....((((((.......))))))...)))).))))))..))))......(((((((.((....))))))))).))))))......))))).. (-63.30) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAGGAUUUAUUGGAUAGUUAAGCAGAGAAAGGCCUUCUGCUUCUACUAAAACGUUCUAAACUAUUCAUGAAUAUCAGACCCACAUUCUUAAUAAUACUUUAAAUGGCUCCUGUCGGCACAUAACUUUCGUUCGUGCUGACAGGAGCAUUGUUCAUUAUGAUUUCUUUCUACUAUCGGUUAUCCCAUUUGGGGAAACGGUAGUAUUUUAUCUAUUAUUCCCGCUUUUA ...((......(((((((((((((((((.......))))))))................))))))))).(((((..(((...........................((((((((((((((..(((....))).))))))))))))))......................((((((((....((((.....))))..)))))))).....)))..)))))))....... (-63.89) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 340 126 81 179 125 pint:PI2133|5end_collagenase_2081106..2081336_POSITIVE 333 127 81 211 150 pint:PI0608|5end_isochorismate_synthase_555487..555717_POSITIVE 303 129 81 113 65 pint:PI0126|5end_conserved_hypothetical_protein_117925..118155_POSITIVE 300 113 77 42 15 pint:PI1151|5end_hypothetical_protein_1076114..1076344_POSITIVE 298 122 81 189 136 pint:PI1831|5end_conserved_hypothetical_protein_1770298..1770528_POSITIVE 295 128 82 153 94 pint:PI0702|5end_conserved_hypothetical_protein;_possible_tetracenomycin_C_synthesis_protein_homolog_638640..638870_POSITIVE 292 133 93 204 155 pint:PI1507|5end_tRNA_pseudouridine_synthase_B_1426554..1426784_POSITIVE 285 123 81 222 178 pint:PI2032|5end_RNA_polymerase_sigma_factor,_ECF_subfamily_1986544..1986774_POSITIVE 285 118 73 198 157 pint:PI0790|5end_hypothetical_protein_728953..729183_POSITIVE 278 127 81 186 140 pint:PI0230|5end_hypothetical_protein_228590..228820_POSITIVE 270 124 82 85 46 pint:PI2017|5end_conserved_hypothetical_protein_1974862..1975092_POSITIVE 266 126 84 148 104 pint:PI0069|5end_hypothetical_protein_67072..67302_POSITIVE 265 136 95 65 24 pint:PI1201|5end_peptidyl-arginine_deiminase_1116598..1116828_POSITIVE 264 127 84 212 180 pint:PI0925|5end_ribosomal_protein_L11_methyltransferase_855806..856036_POSITIVE 262 207 161 186 155 pint:PI1636|5end_hypothetical_protein_1554246..1554476_POSITIVE 261 121 81 124 82 pint:PI0583|5end_hypothetical_protein_525948..526178_POSITIVE 261 122 85 210 169 pint:PI0093|5end_riboflavin_biosynthesis_protein_90489..90719_POSITIVE 260 123 88 48 3 pint:PI1925|5end_conserved_hypothetical_protein_1866387..1866617_POSITIVE 260 124 85 224 167 pint:PI0444|5end_50S_ribosomal_protein_L7/L12_412933..413163_POSITIVE 260 124 85 217 160 pint:PI0445|5end_conserved_hypothetical_protein_412926..413156_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 340 126 81 132 78 pint:PI2132|3end_hypothetical_protein_2081139..2081289_POSITIVE 318 101 61 51 2 pint:PI1848|3end_hypothetical_protein_1795015..1795165_POSITIVE 316 123 81 76 22 pint:PI1924|3end_cytidine_deaminase_1866495..1866645_POSITIVE 292 133 93 132 83 pint:PI1506|3end_S-adenosylmethionine:tRNA_ribosyltransferase-isomerase_(queuine_synthetase)_1426562..1426712_POSITIVE 283 127 81 134 92 pint:PI0914|3end_ATPase,_AAA_family_844992..845142_POSITIVE 270 124 82 76 37 pint:PI2016|3end_ribosomal_large_subunit_pseudouridine_synthase_D_1974933..1975083_POSITIVE 267 132 91 71 26 pint:PI0821|3end_conserved_hypothetical_protein_761213..761363_POSITIVE 266 123 91 48 12 pint:PI1466|3end_GTP-binding_protein,_possible_GTP1/OBG_family_1393133..1393283_POSITIVE 265 120 81 148 112 pint:PI0160|3end_conserved_hypothetical_protein_153268..153418_POSITIVE 263 120 73 139 84 pint:PI0963|3end_hypothetical_protein_893637..893787_POSITIVE 260 117 79 148 91 pint:PI0873|3end_conserved_hypothetical_protein;_possible_permease_808956..809106_POSITIVE 259 125 84 46 2 pint:PI0206|3end_TPR-repeat-containing_protein_199856..200006_POSITIVE 257 125 83 107 75 pint:PI0331|3end_hypothetical_protein_312575..312725_POSITIVE 257 125 83 77 45 pint:PI0330|3end_hypothetical_protein_312545..312695_POSITIVE 256 135 91 122 71 pint:PI2036|3end_hypothetical_protein_1989516..1989666_POSITIVE 256 120 73 101 43 pint:PI0092|3end_regulatory_protein_RecX_89651..89801_POSITIVE 255 120 74 78 19 pint:PI0675|3end_hypothetical_protein_613957..614107_POSITIVE 253 128 87 132 92 pint:PI0105|3end_possible_sulfatase_101453..101603_POSITIVE 248 119 82 105 62 pint:PI0220|3end_conserved_hypothetical_protein_212341..212491_POSITIVE 246 123 82 58 8 pint:PI0249|3end_conserved_hypothetical_protein_247026..247176_POSITIVE